{ "source_file": "multiqc_general_stats.txt", "total_samples": 480, "metrics": [ "Sample", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct", "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean", "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median", "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts", "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts", "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts", "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts", "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm", "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm", "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm", "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30", "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias", "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median", "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean", "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION", "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES", "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES", "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent", "STAR_mqc-generalstats-star-uniquely_mapped_percent", "STAR_mqc-generalstats-star-uniquely_mapped", "fastp_mqc-generalstats-fastp-pct_duplication", "fastp_mqc-generalstats-fastp-after_filtering_q30_rate", "fastp_mqc-generalstats-fastp-after_filtering_q30_bases", "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads", "fastp_mqc-generalstats-fastp-after_filtering_gc_content", "fastp_mqc-generalstats-fastp-pct_surviving", "fastp_mqc-generalstats-fastp-pct_adapter", "Kallisto_mqc-generalstats-kallisto-fragment_length", "Kallisto_mqc-generalstats-kallisto-percent_aligned", "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads", "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates", "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc", "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length", "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length", "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails", "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences", "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates", "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc", "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length", "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length", "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails", "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences" ], "samples": [ { "Sample": "1173_9C_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 387745605, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 112.9, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 107, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.76, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.47, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.33, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.72, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 588455546, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007726, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.504622, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 291507724, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.938669, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.964668, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.045735, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.035332, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 273629254, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 137129597, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 13332187, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5022460, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 424.876729, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 190, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.739943, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.611956, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973144, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 112, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 155.43559, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.508551, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.38289999999999, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 84.63507922902441, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.18, "STAR_mqc-generalstats-star-uniquely_mapped": 277109173, "fastp_mqc-generalstats-fastp-pct_duplication": 24.729699999999998, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971871, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 63784953000, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 588455546, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.577948, "fastp_mqc-generalstats-fastp-pct_surviving": 98.07592433333333, "fastp_mqc-generalstats-fastp-pct_adapter": 81.27013483333333, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_9C_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 112.9, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.24955953427279, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 289077491, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.13377241607475, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 351448728, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_9C_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.16678610329478, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 351448728, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_9C_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.0831502147072, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 111.35287364935465, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294227773, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.0831502147072, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 111.35287364935465, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294227773 }, { "Sample": "1173_9C_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.58089193103532, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 111.69967040466979, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294227773, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.58089193103532, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 111.69967040466979, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294227773 }, { "Sample": "1173_BEE_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 381735119, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 111.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 105, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.95, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.42, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 5.59, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.68, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 565174502, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007911, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.508127, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 277994044, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.931567, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.957118, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.052349, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.042882, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 258970123, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 129790076, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 14552614, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5815016, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 396.627584, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 189, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.73208, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.604431, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974775, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 106, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 140.39367, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.512179, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.01429999999999, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 83.0455095872516, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.29, "STAR_mqc-generalstats-star-uniquely_mapped": 263637311, "fastp_mqc-generalstats-fastp-pct_duplication": 25.918799999999997, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.973739, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 60317899730, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 565174502, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.534836, "fastp_mqc-generalstats-fastp-pct_surviving": 98.45157189258633, "fastp_mqc-generalstats-fastp-pct_adapter": 82.81798903271778, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_BEE_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 111.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.89047418844808, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 276626000, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.01552514011502, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 287031731, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_BEE_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.94281992673297, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 287031731, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_BEE_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.0441781612382, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 109.4408639333839, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 282587251, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.0441781612382, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 109.4408639333839, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 282587251 }, { "Sample": "1173_BEE_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.08691516827011, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 109.75514660426064, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 282587251, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.08691516827011, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 109.75514660426064, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 282587251 }, { "Sample": "1173_C31_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9990000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 333266629, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 112.4, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 106, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.15, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.52, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.06, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.33, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.77, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 205524044, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007537, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.336996, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 136263251, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.950344, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.971071, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.038289, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.028929, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 129496959, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 64947642, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 5217327, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 1934853, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 203.373336, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 82, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.649773, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.46125, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974063, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 110, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 164.055232, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.339555, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.6364, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 85.49812556000359, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.35, "STAR_mqc-generalstats-star-uniquely_mapped": 96956788, "fastp_mqc-generalstats-fastp-pct_duplication": 13.9017, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972983, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 22206262639, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 205524044, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.552498, "fastp_mqc-generalstats-fastp-pct_surviving": 98.49509151663499, "fastp_mqc-generalstats-fastp-pct_adapter": 80.1739109598314, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_C31_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 112.4, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.3236666946861, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 101039388, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 74.08575785611926, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 104332125, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_C31_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 71.29165491239766, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 104332125, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_C31_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 74.09089976522203, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 110.89665992559001, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 102762022, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 74.09089976522203, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 110.89665992559001, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 102762022 }, { "Sample": "1173_C31_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 72.29098912656075, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 111.18886946385699, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 102762022, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 72.29098912656075, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 111.18886946385699, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 102762022 }, { "Sample": "1173_C31_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 380684528, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 113.5, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 106, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.08, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.52, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.04, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.17, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.78, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 305780254, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008182, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.384133, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 188320050, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.946597, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.969971, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.040118, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.030029, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 178263193, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 89366598, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 7555089, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 2766660, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 280.961851, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 119, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.690022, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.532678, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973775, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 112, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 166.633973, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.387301, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.53500000000001, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 85.11820451406214, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.94, "STAR_mqc-generalstats-star-uniquely_mapped": 143621131, "fastp_mqc-generalstats-fastp-pct_duplication": 16.517699999999998, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972583, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 33197572520, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 305780254, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.561282, "fastp_mqc-generalstats-fastp-pct_surviving": 98.18136715703132, "fastp_mqc-generalstats-fastp-pct_adapter": 79.7239754750097, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_C31_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 113.5, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.28354711223439, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 150265840, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 77.14974420028702, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 155722141, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_C31_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 75.23163648097537, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 155722141, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_C31_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 77.16332474793717, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 111.45315828666949, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 152890127, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 77.16332474793717, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 111.45315828666949, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 152890127 }, { "Sample": "1173_C31_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 76.54007468064803, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 111.79166754175043, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 152890127, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 76.54007468064803, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 111.79166754175043, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 152890127 }, { "Sample": "1173_CH0_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 118783467, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 108.5, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 104, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.72, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.36, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.25, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.58, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 66507862, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007418, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.263351, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 48992977, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.944001, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.96112, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.045929, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.03888, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 46249438, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 23159592, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 2250189, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 936876, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 67.405151, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 23, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.452268, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.183801, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974471, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 105, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 129.286834, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.265319, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.0213, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 85.10028632464399, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.42, "STAR_mqc-generalstats-star-uniquely_mapped": 31397541, "fastp_mqc-generalstats-fastp-pct_duplication": 12.6036, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.973398, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 6952964936, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 66507862, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.570444, "fastp_mqc-generalstats-fastp-pct_surviving": 98.61175802497326, "fastp_mqc-generalstats-fastp-pct_adapter": 86.59367194930917, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CH0_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 108.5, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.93859258323475, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 32568432, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 64.23907008440084, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 33722075, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CH0_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 61.27744101355841, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 33722075, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CH0_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 64.16264760831552, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 107.23068205079274, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 33253931, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 64.16264760831552, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 107.23068205079274, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 33253931 }, { "Sample": "1173_CH0_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 62.087129431392256, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 107.56155015177002, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 33253931, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 62.087129431392256, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 107.56155015177002, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 33253931 }, { "Sample": "1173_CH0_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 120488245, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 109, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 104, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.64, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.35, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.04, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.59, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 345689872, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.00769, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.604717, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 136645184, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.923306, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.951334, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.057241, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.048666, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 126165247, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 63123123, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 7821723, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3229116, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 181.216951, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 69, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.634378, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.424815, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973884, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 106, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 132.691708, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.609403, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.10069999999999, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 84.38571633086504, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.14, "STAR_mqc-generalstats-star-uniquely_mapped": 162719632, "fastp_mqc-generalstats-fastp-pct_duplication": 32.014199999999995, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972736, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 36413453121, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 345689872, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.58259, "fastp_mqc-generalstats-fastp-pct_surviving": 98.3512630444638, "fastp_mqc-generalstats-fastp-pct_adapter": 85.24147012230118, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CH0_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 109, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.10296380334799, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 169566005, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.16751315999807, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 175742467, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CH0_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.62821077415637, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 175742467, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CH0_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.18327688512761, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 108.10360617681042, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 172844936, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.18327688512761, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 108.10360617681042, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 172844936 }, { "Sample": "1173_CH0_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.92066241406351, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 108.4641352697773, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 172844936, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.92066241406351, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 108.4641352697773, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 172844936 }, { "Sample": "1173_CI9_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 261764196, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 103.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 98, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.73, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.48, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.12, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.71, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 488992458, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007908, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.533581, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 228075343, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.930995, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.956815, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.05205, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.043185, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 212337074, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 106265442, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 11871312, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4796147, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 302.784505, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 134, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.698164, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.552085, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.9738, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 100, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 125.635952, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.537834, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.3732, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 85.48055828433688, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.66, "STAR_mqc-generalstats-star-uniquely_mapped": 231448075, "fastp_mqc-generalstats-fastp-pct_duplication": 21.984, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.97277, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 49487821562, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 488992458, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.56149, "fastp_mqc-generalstats-fastp-pct_surviving": 98.37095626469265, "fastp_mqc-generalstats-fastp-pct_adapter": 87.57778255151383, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CI9_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 103.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.12050925333494, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 239900945, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.0463001346238, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 248545138, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CI9_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 79.6846640431254, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 248545138, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CI9_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.05544772023643, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 103.84011088776343, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 244496229, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.05544772023643, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 103.84011088776343, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 244496229 }, { "Sample": "1173_CI9_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.89571118766432, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 104.22608505344269, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 244496229, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 80.89571118766432, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 104.22608505344269, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 244496229 }, { "Sample": "1173_CRL_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 595641379, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 116.9, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 109, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.19, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.48, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.05, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.36, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.7, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 590822936, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006835, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.450164, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 324856000, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.941777, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.965464, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.045791, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.034537, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 305941984, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 153605772, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 14875609, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5494780, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 504.562545, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 228, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.730915, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.621523, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974157, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 114, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 180.998074, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.453262, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.4098, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 87.34741872437847, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.87, "STAR_mqc-generalstats-star-uniquely_mapped": 280262071, "fastp_mqc-generalstats-fastp-pct_duplication": 23.5168, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.973151, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 65397379211, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 590822936, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.535085, "fastp_mqc-generalstats-fastp-pct_surviving": 98.47048933333333, "fastp_mqc-generalstats-fastp-pct_adapter": 76.48330116666666, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CRL_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 116.9, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.95429844314643, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 289368231, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.01293100301412, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 490051387, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CRL_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.37965727355565, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 490051387, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CRL_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.01081357875341, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 113.59880077167485, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295411468, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.01081357875341, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 113.59880077167485, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295411468 }, { "Sample": "1173_CRL_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.48799872252143, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 113.8767263700135, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295411468, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.48799872252143, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 113.8767263700135, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295411468 }, { "Sample": "1173_CRL_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 500714967, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 122.7, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 115, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.12, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.47, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.22, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.7, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 589335522, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.00763, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.452503, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 322659394, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.941468, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.967587, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.044595, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.032413, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 303773531, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 152531863, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 14389015, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5109674, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 513.796496, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 238, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.734139, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.626474, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973214, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 122, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 202.848191, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.455982, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.3845, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 87.29748884300471, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.74, "STAR_mqc-generalstats-star-uniquely_mapped": 279172956, "fastp_mqc-generalstats-fastp-pct_duplication": 24.990399999999998, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.97201, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 67376779163, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 589335522, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.543841, "fastp_mqc-generalstats-fastp-pct_surviving": 98.22258699999999, "fastp_mqc-generalstats-fastp-pct_adapter": 73.51093516666667, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CRL_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 122.7, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.91241940444242, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 288516334, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.45995202981358, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 415674567, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CRL_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.4738188198395, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 415674567, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CRL_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.34350419636175, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 117.47003315710536, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294667761, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.34350419636175, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 117.47003315710536, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294667761 }, { "Sample": "1173_CRL_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.71860316931345, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 117.75683288949958, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 122, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294667761, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.71860316931345, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 117.75683288949958, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 122, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294667761 }, { "Sample": "1173_CRX_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 74447018, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 110.5, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 105, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.56, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.58, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.05, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 4.64, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.89, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 22714550, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006695, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.153345, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 19231394, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.953325, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.969433, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.038767, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.030567, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 18333777, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 9184943, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 745534, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 289610, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 27.623626, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 9, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.255636, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.058108, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973317, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 108, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 149.612272, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.154378, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.5348, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 85.65014097987014, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.66, "STAR_mqc-generalstats-star-uniquely_mapped": 10751286, "fastp_mqc-generalstats-fastp-pct_duplication": 6.11056, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972137, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 2415931291, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 22714550, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.559629, "fastp_mqc-generalstats-fastp-pct_surviving": 98.17069981990517, "fastp_mqc-generalstats-fastp-pct_adapter": 83.50603190189564, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CRX_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 110.5, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.13768707722583, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 11145767, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 47.67642823328628, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 11568905, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CRX_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 43.19943062740839, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 11568905, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CRX_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 47.47694987836807, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 109.22984219366, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 11357275, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 47.47694987836807, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 109.22984219366, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 11357275 }, { "Sample": "1173_CRX_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 43.86149065935373, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 109.57941125842247, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 0, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 11357275, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 43.86149065935373, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 109.57941125842247, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 0, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 11357275 }, { "Sample": "1173_CRX_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 263662307, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 118.5, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 113, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.41, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.56, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 4.32, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.91, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 587312938, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007571, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.55366, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 262141442, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.935239, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.963379, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.047799, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.036621, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 245165013, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 122765428, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 12530018, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4666695, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 390.284329, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 168, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.702116, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.58032, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.971501, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 120, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 177.426406, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.557883, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.4339, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 85.76513670167232, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.54, "STAR_mqc-generalstats-star-uniquely_mapped": 277609250, "fastp_mqc-generalstats-fastp-pct_duplication": 30.6734, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.970054, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 66213049970, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 587312938, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.572619, "fastp_mqc-generalstats-fastp-pct_surviving": 97.88548966666667, "fastp_mqc-generalstats-fastp-pct_adapter": 77.68487383333334, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CRX_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 118.5, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.26539663255298, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 288562694, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.09381454785625, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 336474539, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CRX_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.20382562997212, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 336474539, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_CRX_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.20957594716242, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 116.04136224221915, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 293656469, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.20957594716242, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 116.04136224221915, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 293656469 }, { "Sample": "1173_CRX_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.9938827702133, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 116.38631367592996, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 293656469, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.9938827702133, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 116.38631367592996, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 293656469 }, { "Sample": "1173_D6K_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 619116352, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 122.8, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 113, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.26, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.72, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.78, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 1.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 590667656, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006082, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.497848, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 296604742, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.948554, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.972935, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.039333, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.027065, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 281345688, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 141361625, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 11666333, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3932422, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 492.601981, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 189, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.695854, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.586123, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973936, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 130, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 290.758483, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.500895, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 98.1117, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 89.74477798169765, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 95.77, "STAR_mqc-generalstats-star-uniquely_mapped": 282842891, "fastp_mqc-generalstats-fastp-pct_duplication": 29.0329, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972962, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 67686376934, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 590667656, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.538019, "fastp_mqc-generalstats-fastp-pct_surviving": 98.44460933333333, "fastp_mqc-generalstats-fastp-pct_adapter": 71.241249, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_D6K_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 122.8, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.49217509888504, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 290880711, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 88.86271133783336, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 605243290, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_D6K_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.21504897192582, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 605243290, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_D6K_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.69658302956371, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 117.64976040943064, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 122, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295333828, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 85.69658302956371, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 117.64976040943064, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 122, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295333828 }, { "Sample": "1173_D6K_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.97324610907837, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 117.89446889572027, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 122, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295333828, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.97324610907837, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 117.89446889572027, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 122, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295333828 }, { "Sample": "1173_D6K_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 670479403, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 130.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 121, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.17, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.71, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.59, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 1.04, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 589258688, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006629, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.47618, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 308665272, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.949072, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.975085, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.038273, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.024915, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 292945698, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 147272782, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 11813440, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3763101, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 534.110314, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 213, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.705414, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.59991, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973212, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 148, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 362.430468, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.479358, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 98.0766, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 90.2222625976867, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 95.76, "STAR_mqc-generalstats-star-uniquely_mapped": 282124209, "fastp_mqc-generalstats-fastp-pct_duplication": 28.3174, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.97213, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 69955478031, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 589258688, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.542973, "fastp_mqc-generalstats-fastp-pct_surviving": 98.20978133333334, "fastp_mqc-generalstats-fastp-pct_adapter": 66.67939233333333, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_D6K_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 130.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.54923072428251, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 290354952, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 89.68093025561252, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 779631836, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_D6K_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 88.09104833993557, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 779631836, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_D6K_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.36851738438283, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 121.99974695324306, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 127, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294629344, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 85.36851738438283, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 121.99974695324306, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 127, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 27.27272727272727, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294629344 }, { "Sample": "1173_D6K_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.01968820716931, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 122.2308327747558, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 127, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294629344, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 85.01968820716931, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 122.2308327747558, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 127, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294629344 }, { "Sample": "1173_DSO_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 499237738, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 107.2, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 100, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.13, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.47, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.07, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.3, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.73, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 589665710, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006802, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.488442, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 301648174, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.941089, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.964051, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.045614, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.035949, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 283877748, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 142268412, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 13759251, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5305179, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 430.049347, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 172, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.715749, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.586417, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.972794, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 104, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 141.609761, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.491787, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.5558, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 78.05732514788147, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 91.64, "STAR_mqc-generalstats-star-uniquely_mapped": 270184803, "fastp_mqc-generalstats-fastp-pct_duplication": 20.3962, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971639, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 61143325554, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 589665710, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.577897, "fastp_mqc-generalstats-fastp-pct_surviving": 98.27761833333334, "fastp_mqc-generalstats-fastp-pct_adapter": 83.4248075, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_DSO_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 107.2, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.188074392184, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 289490703, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.3900126794185, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 605745434, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_DSO_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.44212389842095, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 605745434, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_DSO_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.9882092578108, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 106.54236697602782, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294832855, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 80.9882092578108, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 106.54236697602782, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294832855 }, { "Sample": "1173_DSO_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.27242983690095, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 106.88761190810976, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294832855, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 80.27242983690095, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 106.88761190810976, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294832855 }, { "Sample": "1173_DSO_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 397191951, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 118.9, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 112, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.46, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.04, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.73, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 412555804, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007692, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.434081, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 233472998, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.943425, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.96786, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.042983, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.03214, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 220264243, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 110480300, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 10035469, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3668753, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 361.11799, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 136, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.694491, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.551368, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973641, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 119, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 174.89882599999999, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.437446, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.4079, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 78.38631414592541, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 91.42, "STAR_mqc-generalstats-star-uniquely_mapped": 188569491, "fastp_mqc-generalstats-fastp-pct_duplication": 23.0688, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972316, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 46420963129, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 412555804, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.582194, "fastp_mqc-generalstats-fastp-pct_surviving": 98.04746898517351, "fastp_mqc-generalstats-fastp-pct_adapter": 76.2783925540508, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_DSO_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 118.9, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.1563963162666, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 202474955, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 79.03704818695003, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 210385749, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_DSO_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 77.5704759405553, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 210385749, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_DSO_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 79.02283225928436, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 115.56387482552542, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 206277902, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 79.02283225928436, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 115.56387482552542, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 206277902 }, { "Sample": "1173_DSO_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 79.00372472313757, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 115.8756639816901, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 206277902, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 79.00372472313757, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 115.8756639816901, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 206277902 }, { "Sample": "1173_F0Y_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 155202698, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 104.2, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 100, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.06, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.55, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.51, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.12, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 4.36, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.78, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 590333160, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.00661, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.67544, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 191598689, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.926754, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.95682, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.052882, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.04318, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 177564779, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 88855574, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 10132029, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4009895, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 248.26066, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 102, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.667116, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.504511, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974519, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 103, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 139.148113, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.679934, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.6362, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 79.67724812718085, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 92.42, "STAR_mqc-generalstats-star-uniquely_mapped": 272806771, "fastp_mqc-generalstats-fastp-pct_duplication": 35.157500000000006, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.973484, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 60568427900, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 590333160, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.565191, "fastp_mqc-generalstats-fastp-pct_surviving": 98.38886, "fastp_mqc-generalstats-fastp-pct_adapter": 87.38042416666667, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_F0Y_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 104.2, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.30002434557463, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 290148820, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.41176102029965, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 383882668, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_F0Y_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.28949804478545, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 383882668, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_F0Y_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.704586621906, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 105.2092484318516, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295166580, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 85.704586621906, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 105.2092484318516, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295166580 }, { "Sample": "1173_F0Y_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.85546412625504, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 105.57329693287092, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295166580, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.85546412625504, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 105.57329693287092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295166580 }, { "Sample": "1173_F0Y_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 105863408, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 109.4, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 104, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.38, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.5, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.06, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.95, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.79, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 573354668, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008174, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.761782, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 136583482, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.90516, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.950737, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.060525, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.049263, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 123629951, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 61821915, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 8266698, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3203318, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 175.863305, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 63, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.611502, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.410271, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.972815, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 109, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 152.666348, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.76806, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.41109999999999, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 77.86016335406175, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 91.67, "STAR_mqc-generalstats-star-uniquely_mapped": 262793182, "fastp_mqc-generalstats-fastp-pct_duplication": 43.2755, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971351, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 61064529257, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 573354668, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.583445, "fastp_mqc-generalstats-fastp-pct_surviving": 97.87280720479201, "fastp_mqc-generalstats-fastp-pct_adapter": 83.86123460388438, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_F0Y_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 109.4, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.06445458293538, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 281128564, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.87285229739791, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 292908053, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_F0Y_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.90146415012988, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 292908053, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_F0Y_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.98703485358332, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 109.43178256638873, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 286677334, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 87.98703485358332, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 109.43178256638873, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 286677334 }, { "Sample": "1173_F0Y_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.65266457157827, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 109.85130152284728, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 286677334, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 87.65266457157827, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 109.85130152284728, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 286677334 }, { "Sample": "1173_FM_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 264911845, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 100.5, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 96, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.86, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.57, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.06, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.49, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.87, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 587515956, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008061, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.650558, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 205302872, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.922207, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.954819, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.054726, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.045181, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 189331706, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 94663450, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 11235484, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4479339, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 256.450048, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 85, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.645898, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.472441, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.967798, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 102, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 142.106951, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.655844, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.5002, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 83.4950666652403, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.19, "STAR_mqc-generalstats-star-uniquely_mapped": 276685121, "fastp_mqc-generalstats-fastp-pct_duplication": 27.094, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.966374, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 58307003602, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 587515956, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.603862, "fastp_mqc-generalstats-fastp-pct_surviving": 97.919326, "fastp_mqc-generalstats-fastp-pct_adapter": 89.08942833333333, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_FM_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 100.5, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.96070491743376, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 287767386, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.80322348913637, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 495719859, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_FM_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.53039775001253, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 495719859, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_FM_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.11611753165467, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 60, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 102.46686527097486, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 293757978, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.11611753165467, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 60, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 102.46686527097486, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 293757978 }, { "Sample": "1173_FM_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.45178809833598, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 60, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 102.92032131634566, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 293757978, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.45178809833598, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 60, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 102.92032131634566, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 293757978 }, { "Sample": "1173_FM_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 156135258, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 107.2, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 102, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.72, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.54, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.19, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.87, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 585852312, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.009489, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.696413, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 177857206, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.912235, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.953767, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.05651, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.046233, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 162247617, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 81141485, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 10050689, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3933275, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 228.123562, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 65, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.61202, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.425654, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.971601, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 112, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 166.473363, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.703084, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.4311, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 83.00165404403546, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.76, "STAR_mqc-generalstats-star-uniquely_mapped": 274642664, "fastp_mqc-generalstats-fastp-pct_duplication": 36.2158, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.969828, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 61506129787, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 585852312, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.616696, "fastp_mqc-generalstats-fastp-pct_surviving": 97.642052, "fastp_mqc-generalstats-fastp-pct_adapter": 85.25974183333334, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_FM_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 107.2, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.94521660947206, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 286907158, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.53983299204099, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 371342743, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_FM_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.65359855266686, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 59, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 371342743, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_FM_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.96184610430109, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 61, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 108.02166348368017, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 292926156, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.96184610430109, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 61, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 108.02166348368017, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 292926156 }, { "Sample": "1173_FM_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.87400470150278, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 61, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 108.47427872914155, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 292926156, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.87400470150278, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 61, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 108.47427872914155, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 292926156 }, { "Sample": "1173_FWA_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 325520584, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Yes", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 124.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 116, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.57, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.88, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 588300466, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007892, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.505165, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 291111463, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.93838, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.966177, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.045673, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.033823, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 273173034, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 137044033, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 13295822, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4797486, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 461.920314, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 216, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.730312, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.614384, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973713, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 125, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 199.608052, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.509184, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.72279999999999, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 84.54996001829657, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.95, "STAR_mqc-generalstats-star-uniquely_mapped": 276362975, "fastp_mqc-generalstats-fastp-pct_duplication": 27.634999999999998, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.97233, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 67939895444, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 588300466, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.568111, "fastp_mqc-generalstats-fastp-pct_surviving": 98.05007766666667, "fastp_mqc-generalstats-fastp-pct_adapter": 72.63238116666668, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_FWA_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 124.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.23966109182038, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 288972192, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.1080684756105, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 394768934, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_FWA_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.74306489222843, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 394768934, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_FWA_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 79.72715391194362, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 118.61638189489382, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 122, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294150233, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 79.72715391194362, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 118.61638189489382, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 122, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294150233 }, { "Sample": "1173_FWA_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 79.9438275391432, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 118.91538280712496, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 122, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294150233, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 79.9438275391432, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 118.91538280712496, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 122, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294150233 }, { "Sample": "1173_FWA_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 11470, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Skipped", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": "N/A", "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 104.9, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 31, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 19646, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.507279, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.36216, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 12531, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.013487, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.073944, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.191206, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.926056, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 169, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 84, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 2396, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 1052, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 0.00018, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.927071, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 32, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 32.569169, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.735021, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0.1298, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 21.8668, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 1.87358942079775, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 7.18, "STAR_mqc-generalstats-star-uniquely_mapped": 705, "fastp_mqc-generalstats-fastp-pct_duplication": 32.5785, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.854706, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 1436380, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 19646, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.716355, "fastp_mqc-generalstats-fastp-pct_surviving": 5.942564685811772, "fastp_mqc-generalstats-fastp-pct_adapter": 50.867518859763216, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_FWA_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 104.862, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 8.215412806678204, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 807, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 96.22018282022275, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 74, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 45.45454545454545, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 165299, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_FWA_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 93.02355126165313, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 94, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 54.54545454545454, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 165299, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_FWA_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 54.535274356103024, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 67, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 70.77766466456276, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 37, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 54.54545454545454, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 9823, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 54.535274356103024, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 67, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 70.77766466456276, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 37, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 54.54545454545454, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 9823 }, { "Sample": "1173_FWA_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 57.93545759951135, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 74, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 100.53955003563067, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 122, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 54.54545454545454, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 9823, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 57.93545759951135, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 74, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 100.53955003563067, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 122, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 54.54545454545454, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 9823 }, { "Sample": "1173_G2E_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 171775133, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 102.9, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 99, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.87, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.36, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.53, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.56, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 587719940, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.009399, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.663783, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 197601297, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.910111, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.946765, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.061933, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.053235, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 179839134, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 89876869, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 12238021, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5053639, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 245.879404, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 92, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.66057, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.486401, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.972217, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 100, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 121.590164, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.670082, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.5602, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 80.8108672380387, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.03, "STAR_mqc-generalstats-star-uniquely_mapped": 273373319, "fastp_mqc-generalstats-fastp-pct_duplication": 29.614400000000003, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.970767, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 59177745229, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 587719940, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.591708, "fastp_mqc-generalstats-fastp-pct_surviving": 97.95332333333333, "fastp_mqc-generalstats-fastp-pct_adapter": 88.55621983333334, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_G2E_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 102.9, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.88208308875824, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 287636260, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.47931177578423, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 400365841, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_G2E_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.44745151689905, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 400365841, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_G2E_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.20716210636564, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 103.49858649002108, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 293859970, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.20716210636564, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 103.49858649002108, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 293859970 }, { "Sample": "1173_G2E_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.81376274894475, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 59, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 103.93948867891056, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 293859970, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.81376274894475, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 59, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 103.93948867891056, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 293859970 }, { "Sample": "1173_G2E_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 116101252, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 106.9, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 102, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.83, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.35, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.46, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.55, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 563933476, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.010177, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.739646, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 146822289, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.898437, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.946943, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.062474, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.053057, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 131910641, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 65885943, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 9172542, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3691554, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 185.148496, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 68, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.625787, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.425082, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973325, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 104, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 129.515789, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.747251, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.66890000000001, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 80.31056473692992, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 92.71, "STAR_mqc-generalstats-star-uniquely_mapped": 261409803, "fastp_mqc-generalstats-fastp-pct_duplication": 44.481, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971764, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 58708659408, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 563933476, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.587933, "fastp_mqc-generalstats-fastp-pct_surviving": 97.76833911521553, "fastp_mqc-generalstats-fastp-pct_adapter": 86.02678572806232, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_G2E_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 106.9, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.04640290586332, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 276458244, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.40330980710351, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 288402913, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_G2E_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.51242425818066, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 288402913, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_G2E_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.4348514736282, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 106.9025159946348, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 281966738, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 86.4348514736282, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 106.9025159946348, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 281966738 }, { "Sample": "1173_G2E_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.24891142552009, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 59, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 107.35046940891304, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 281966738, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 86.24891142552009, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 59, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 107.35046940891304, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 281966738 }, { "Sample": "1173_GFO_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 168810340, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 115.8, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 112, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.56, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.29, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 1.77, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.47, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 580907912, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.012803, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.672172, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 190438066, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.900445, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.948991, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.060502, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.051009, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 171478951, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 85820999, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 11521926, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4612964, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 258.787034, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 117, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.713942, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.534993, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973341, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 115, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 145.837568, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.680889, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.1408, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 82.40827201039835, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 92.84, "STAR_mqc-generalstats-star-uniquely_mapped": 269662375, "fastp_mqc-generalstats-fastp-pct_duplication": 38.8177, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971927, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 64465189829, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 580907912, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.578816, "fastp_mqc-generalstats-fastp-pct_surviving": 97.96951872991974, "fastp_mqc-generalstats-fastp-pct_adapter": 80.82631034908883, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GFO_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 115.8, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.13804050925029, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 285045821, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.9899748085947, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 296473801, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GFO_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.75316698718007, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 296473801, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GFO_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.05663325435623, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 114.00959880883839, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 290453956, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 85.05663325435623, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 114.00959880883839, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 290453956 }, { "Sample": "1173_GFO_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.24773949187943, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 114.33641384798354, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 290453956, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.24773949187943, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 114.33641384798354, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 290453956 }, { "Sample": "1173_GFO_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 122977893, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 116.5, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 111, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.53, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.28, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 1.68, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.46, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 483494574, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.014371, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.706199, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 142051207, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.888671, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.94705, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.062415, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.05295, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 126236822, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 63146102, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 8866096, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3530541, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 189.170549, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 81, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.672055, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.453904, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973096, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 114, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 147.04558, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.716496, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.0907, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 82.02470069911524, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 92.53, "STAR_mqc-generalstats-star-uniquely_mapped": 223679147, "fastp_mqc-generalstats-fastp-pct_duplication": 44.0796, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971514, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 53808820294, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 483494574, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.581897, "fastp_mqc-generalstats-fastp-pct_surviving": 97.82111234021576, "fastp_mqc-generalstats-fastp-pct_adapter": 80.30816007263097, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GFO_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 116.5, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.1228595959383, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 237209351, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.86795673865545, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 247132016, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GFO_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.38412973820539, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 247132016, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GFO_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.93480912693167, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 114.36988950366172, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 241747287, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 85.93480912693167, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 114.36988950366172, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 241747287 }, { "Sample": "1173_GFO_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.1655409321599, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 114.7291083022578, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 241747287, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 85.1655409321599, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 114.7291083022578, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 241747287 }, { "Sample": "1173_GXL_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 184090292, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 106.4, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 101, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.79, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.41, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.35, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.6, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 589774004, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007008, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.634427, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 215605405, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.924692, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.953605, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.056137, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.046395, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 199368537, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 99811998, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 12103503, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4856085, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 287.271239, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 128, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.71624, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.550842, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.972688, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 103, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 130.423349, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.638905, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.2764, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.38190267055907, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.89, "STAR_mqc-generalstats-star-uniquely_mapped": 279822929, "fastp_mqc-generalstats-fastp-pct_duplication": 29.750100000000003, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.97152, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 61003569397, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 589774004, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.575572, "fastp_mqc-generalstats-fastp-pct_surviving": 98.29566733333334, "fastp_mqc-generalstats-fastp-pct_adapter": 85.2618215, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GXL_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 106.4, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.24777356582166, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 289719914, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.15522067981198, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 413791225, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GXL_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.12706572841464, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 413791225, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GXL_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.76984992104383, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 106.28400981878475, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294887002, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.76984992104383, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 106.28400981878475, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294887002 }, { "Sample": "1173_GXL_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.95020220962674, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 106.64382385697692, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294887002, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.95020220962674, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 106.64382385697692, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294887002 }, { "Sample": "1173_GXL_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 136330590, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 112.7, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 107, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.74, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.41, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.24, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.63, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 565513486, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007843, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.711097, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 163378841, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.911192, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.948999, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.061659, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.051001, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 148869541, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 74500724, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 10073759, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4003778, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 215.737406, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 92, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.67912, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.482577, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.9731, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 110, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 145.50452, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.716718, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.10029999999999, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 85.68993286533501, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.59, "STAR_mqc-generalstats-star-uniquely_mapped": 267448672, "fastp_mqc-generalstats-fastp-pct_duplication": 40.1817, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971737, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 61298656806, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 565513486, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.579219, "fastp_mqc-generalstats-fastp-pct_surviving": 98.01696153902684, "fastp_mqc-generalstats-fastp-pct_adapter": 81.70290347914998, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GXL_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 112.7, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.1735321516276, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 277592282, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.38296086917936, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 288477360, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GXL_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.02695631116825, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 288477360, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GXL_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.43584416199917, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 111.36139833100285, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 282756743, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 86.43584416199917, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 111.36139833100285, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 282756743 }, { "Sample": "1173_GXL_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.59625376643348, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 111.72451465109711, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 282756743, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 85.59625376643348, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 111.72451465109711, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 282756743 }, { "Sample": "1173_GZ1_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 89192228, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 112.8, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 106, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.74, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.35, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.04, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.3, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.55, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 30843242, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008081, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.183277, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 25190386, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.951152, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.969514, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.038954, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.030486, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 23959890, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 12015220, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 981257, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 377820, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 36.868633, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 15, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.335974, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.081178, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974395, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 109, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 155.121198, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.18477, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.43509999999999, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 85.65504437705944, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.5, "STAR_mqc-generalstats-star-uniquely_mapped": 14572662, "fastp_mqc-generalstats-fastp-pct_duplication": 7.84924, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.973383, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 3319470251, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 30843242, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.549746, "fastp_mqc-generalstats-fastp-pct_surviving": 98.52351643939961, "fastp_mqc-generalstats-fastp-pct_adapter": 81.61266554698985, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GZ1_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 112.8, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.35693018263126, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 15168233, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 54.113470016761326, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 15652731, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GZ1_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 48.9385860601078, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 15652731, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GZ1_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 53.98395366625442, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 110.4106743383202, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 15421621, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 53.98395366625442, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 110.4106743383202, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 15421621 }, { "Sample": "1173_GZ1_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 49.56764769545959, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 110.71387119421493, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 0, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 15421621, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 49.56764769545959, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 110.71387119421493, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 0, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 15421621 }, { "Sample": "1173_GZ1_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 230091914, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Yes", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0.04, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 115.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 108, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.68, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.34, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.17, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.54, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 560658426, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.009214, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.574719, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 238437358, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.928687, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.961207, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.049646, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.038793, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 221433753, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 111059402, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 11837420, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4482171, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 349.67774, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 187, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.766883, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.626353, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973613, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 116, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 170.990581, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.580064, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.4205, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 85.28223122790523, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.18, "STAR_mqc-generalstats-star-uniquely_mapped": 264001606, "fastp_mqc-generalstats-fastp-pct_duplication": 31.985000000000003, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.9724, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 62271653780, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 560658426, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.560096, "fastp_mqc-generalstats-fastp-pct_surviving": 98.21741358113411, "fastp_mqc-generalstats-fastp-pct_adapter": 78.69776654312884, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GZ1_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 115.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.39204271586209, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 275821639, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.55128553597899, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 285417018, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GZ1_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.2738223902337, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 285417018, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_GZ1_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.60057472038825, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 114.06351197511478, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 280329213, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.60057472038825, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 114.06351197511478, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 280329213 }, { "Sample": "1173_GZ1_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.7057829575123, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 114.3694538820683, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 280329213, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.7057829575123, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 114.3694538820683, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 280329213 }, { "Sample": "1173_H2E_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 559868144, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 116.6, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 108, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.85, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.39, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.48, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.56, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 588655702, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007767, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.453692, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 321587233, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.937917, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.963925, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.047865, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.036075, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 301622269, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 151422559, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 15392771, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5667025, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 490.612354, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 231, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.76732, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.644663, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.972028, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 113, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 172.892201, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.457244, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.1783, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.98362111025476, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.96, "STAR_mqc-generalstats-star-uniquely_mapped": 279486693, "fastp_mqc-generalstats-fastp-pct_duplication": 22.2878, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.970848, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 64661095579, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 588655702, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.569267, "fastp_mqc-generalstats-fastp-pct_surviving": 98.10928366666667, "fastp_mqc-generalstats-fastp-pct_adapter": 76.48590783333333, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_H2E_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 116.6, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.1616918067329, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 288917198, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.69305256386804, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 724062550, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_H2E_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.4390844728326, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 724062550, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_H2E_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.60571503772252, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 112.9798187158306, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294327851, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.60571503772252, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 112.9798187158306, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 27.27272727272727, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294327851 }, { "Sample": "1173_H2E_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.5360147561169, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 113.29826600065789, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294327851, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.5360147561169, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 113.29826600065789, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294327851 }, { "Sample": "1173_H2E_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 485980051, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 128.2, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 119, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.76, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.36, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.29, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.54, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 588162284, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008419, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.457683, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 318970661, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.937562, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.966458, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.046913, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.033542, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 299054720, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 150304443, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 14963985, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5216481, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 522.153515, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 250, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.77343, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.655745, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.971443, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 132, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 224.300163, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.461569, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.06620000000001, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 87.64318418565145, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.97, "STAR_mqc-generalstats-star-uniquely_mapped": 279277726, "fastp_mqc-generalstats-fastp-pct_duplication": 26.417099999999998, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.970164, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 69291577437, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 588162284, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.568572, "fastp_mqc-generalstats-fastp-pct_surviving": 98.02704733333333, "fastp_mqc-generalstats-fastp-pct_adapter": 68.78816016666667, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_H2E_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 128.2, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.16961163732151, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 288698315, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.42094318095646, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 419042007, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_H2E_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.03071013642675, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 419042007, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_H2E_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.26787215489689, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 121.29473481165957, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 127, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294081142, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.26787215489689, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 121.29473481165957, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 127, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294081142 }, { "Sample": "1173_H2E_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.3077249074266, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 121.56006516051954, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 127, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294081142, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.3077249074266, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 121.56006516051954, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 127, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294081142 }, { "Sample": "1173_HOB_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 452480665, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Yes", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 109.8, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 103, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.36, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.67, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.04, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.75, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.92, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 589592558, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007086, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.497043, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 296539610, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.940857, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.965539, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.045054, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.034461, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 279001449, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 139888452, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 13360149, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4992801, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 428.62589, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 162, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.704727, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.575523, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.97301, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 108, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 158.379354, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.50059, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.7963, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 83.26871703529042, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.87, "STAR_mqc-generalstats-star-uniquely_mapped": 276734798, "fastp_mqc-generalstats-fastp-pct_duplication": 23.2838, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971824, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 62492101834, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 589592558, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.579844, "fastp_mqc-generalstats-fastp-pct_surviving": 98.26542633333334, "fastp_mqc-generalstats-fastp-pct_adapter": 82.33902333333334, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_HOB_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 109.8, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.0444268090643, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 289031322, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.36370691253977, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 663278038, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_HOB_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.69572839230327, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 663278038, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_HOB_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.71807516215222, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 108.88485728817493, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294796279, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.71807516215222, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 108.88485728817493, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 27.27272727272727, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294796279 }, { "Sample": "1173_HOB_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.3761417496814, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 109.23658879697054, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294796279, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.3761417496814, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 109.23658879697054, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294796279 }, { "Sample": "1173_HOB_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 348178125, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Yes", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 113.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 106, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.25, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.66, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.52, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.94, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 475785136, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007809, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.478141, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 248292868, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.941314, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.967754, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.043723, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.032246, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 233721536, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 117174205, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 10856013, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3904241, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 366.578012, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 126, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.681046, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.538336, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.971888, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 113, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 170.451625, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.481904, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.7, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 82.44005031604749, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.45, "STAR_mqc-generalstats-star-uniquely_mapped": 222316119, "fastp_mqc-generalstats-fastp-pct_duplication": 22.095100000000002, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.970558, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 51486515866, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 475785136, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.589746, "fastp_mqc-generalstats-fastp-pct_surviving": 97.97448454678509, "fastp_mqc-generalstats-fastp-pct_adapter": 80.29416672789063, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_HOB_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 113.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.01217581542943, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 233163682, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.17636577399787, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 242810737, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_HOB_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.20268503260796, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 242810737, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_HOB_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.21720156465021, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 111.29786723728166, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 237892568, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.21720156465021, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 111.29786723728166, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 237892568 }, { "Sample": "1173_HOB_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.72489430237331, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 59, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 111.68611561669299, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 237892568, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.72489430237331, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 59, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 111.68611561669299, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 237892568 }, { "Sample": "1173_HRO_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 191835680, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Yes", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 105.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 100, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.66, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.3, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 1.87, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.44, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 589167450, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007104, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.644639, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 209367308, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.92573, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.954845, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.054279, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.045155, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 193817594, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 96976115, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 11364327, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4586086, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 277.904608, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 136, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.728253, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.563851, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973725, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 104, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 145.187281, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.649251, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.5587, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 83.37684930756187, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.59, "STAR_mqc-generalstats-star-uniquely_mapped": 275688964, "fastp_mqc-generalstats-fastp-pct_duplication": 29.092000000000002, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972454, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 60359534937, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 589167450, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.570655, "fastp_mqc-generalstats-fastp-pct_surviving": 98.194575, "fastp_mqc-generalstats-fastp-pct_adapter": 86.80079333333333, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_HRO_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 105.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.02305914897369, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 288759979, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.44730140286278, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 402335540, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_HRO_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.19842405714769, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 402335540, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_HRO_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.19384731191431, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 105.15607349319791, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294583725, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.19384731191431, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 105.15607349319791, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294583725 }, { "Sample": "1173_HRO_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.26850991680139, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 105.53878027375748, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294583725, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.26850991680139, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 105.53878027375748, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294583725 }, { "Sample": "1173_IT6_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 188526454, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 100, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 95, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.04, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.76, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.45, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.09, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.11, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.62, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 522531886, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006605, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.615607, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 200857801, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.926219, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.95177, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.056596, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.04823, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 186038418, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 93093479, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 11367840, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4717404, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 257.032113, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 98, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.652194, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.496918, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974822, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 95, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 121.195107, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.6197, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0.0007999999999999999, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.2287, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 82.72359931160955, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.71, "STAR_mqc-generalstats-star-uniquely_mapped": 247456288, "fastp_mqc-generalstats-fastp-pct_duplication": 25.8525, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.973883, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 51518239701, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 522531886, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.535345, "fastp_mqc-generalstats-fastp-pct_surviving": 98.62290957623013, "fastp_mqc-generalstats-fastp-pct_adapter": 89.16346958254373, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_IT6_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 100, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.79411585994582, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 255502719, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.68020641751393, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 264914049, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_IT6_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.88045649393227, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 264914049, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_IT6_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.7869719025885, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 101.05344538534057, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 261265943, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.7869719025885, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 101.05344538534057, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 261265943 }, { "Sample": "1173_IT6_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.94181484377867, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 101.41458123380436, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 261265943, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.94181484377867, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 101.41458123380436, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 261265943 }, { "Sample": "1173_IT6_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 191441011, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 106.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 100, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.73, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.48, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.04, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.09, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.66, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 300330088, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007467, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.479598, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 156292265, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.939626, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.963341, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.046026, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.036659, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 146856258, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 73531222, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 7193500, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 2798148, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 212.946661, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 80, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.633264, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.461694, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973806, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 102, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 135.372954, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.483206, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.47109999999999, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 85.12951870101571, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.76, "STAR_mqc-generalstats-star-uniquely_mapped": 142291644, "fastp_mqc-generalstats-fastp-pct_duplication": 20.5438, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972604, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 30908046533, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 300330088, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.555541, "fastp_mqc-generalstats-fastp-pct_surviving": 98.19813520837866, "fastp_mqc-generalstats-fastp-pct_adapter": 86.26833194803804, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_IT6_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 106.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.27284437781671, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 147571460, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.20408848572536, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 152920464, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_IT6_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 77.97944400057585, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 152920464, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_IT6_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.19168314332296, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 105.60617781991927, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 150165044, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 80.19168314332296, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 105.60617781991927, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 150165044 }, { "Sample": "1173_IT6_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 79.30636815324172, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 106.01011317254367, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 150165044, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 79.30636815324172, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 106.01011317254367, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 150165044 }, { "Sample": "1173_J3R_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 148337795, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 91.6, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 88, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.05, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.39, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.18, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.6, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 472800642, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007054, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.650239, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 165367285, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.911346, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.93855, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.068485, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.06145, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 150706779, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 75255626, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 11325135, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4927243, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 185.365216, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 83, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.662302, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.460238, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973767, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 88, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 103.402949, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.654859, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.1613, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 80.09720965686033, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.24, "STAR_mqc-generalstats-star-uniquely_mapped": 220421887, "fastp_mqc-generalstats-fastp-pct_duplication": 22.1564, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972796, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 42878400987, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 472800642, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.554899, "fastp_mqc-generalstats-fastp-pct_surviving": 98.42650170429586, "fastp_mqc-generalstats-fastp-pct_adapter": 94.2198486663781, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_J3R_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 91.6, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.89314456979946, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 231419708, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.05505675257588, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 240179542, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_J3R_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.30210285802337, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 240179542, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_J3R_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.10609464306059, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 93.00165830570086, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 92, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 236400321, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.10609464306059, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 93.00165830570086, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 92, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 236400321 }, { "Sample": "1173_J3R_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.46381813356584, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 93.44829407401693, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 92, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 236400321, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.46381813356584, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 93.44829407401693, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 92, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 236400321 }, { "Sample": "1173_J3R_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 95818199, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 99.2, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 95, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.94, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.37, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.98, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.58, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 349997100, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008098, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.662166, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 118240962, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.91286, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.944898, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.06317, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.055102, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 107937463, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 53872653, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 7469305, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3141604, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 139.606943, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 62, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.625984, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.391278, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973368, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 97, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 116.46490500000002, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.667572, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.247, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 79.33340350901555, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 92.71, "STAR_mqc-generalstats-star-uniquely_mapped": 162239049, "fastp_mqc-generalstats-fastp-pct_duplication": 28.1632, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972219, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 34217994764, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 349997100, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.553211, "fastp_mqc-generalstats-fastp-pct_surviving": 97.93077880701516, "fastp_mqc-generalstats-fastp-pct_adapter": 91.41630087212445, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_J3R_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 99.2, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.21437606197308, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 171873734, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.70547702258926, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 178696169, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_J3R_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.61293433921715, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 178696169, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_J3R_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.74976667274166, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 100.32653297413036, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 174998550, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.74976667274166, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 100.32653297413036, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 174998550 }, { "Sample": "1173_J3R_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.20615708746597, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 100.78846575014478, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 174998550, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.20615708746597, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 100.78846575014478, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 174998550 }, { "Sample": "1173_JIG_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 48283151, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 89.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 82, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.07, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.8, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.29, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.14, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.16, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.45, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 55214792, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.027147, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.516213, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 26712223, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.856495, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.914892, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.087392, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.085108, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 22878895, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 11443081, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 2334437, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 1064500, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 29.217332, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 7, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.241721, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.069592, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.972028, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 68, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 78.246507, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.530617, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0.38630000000000003, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 78.40270000000001, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 18.71868401385835, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 62.92, "STAR_mqc-generalstats-star-uniquely_mapped": 17370438, "fastp_mqc-generalstats-fastp-pct_duplication": 18.433, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.969716, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 4292342862, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 55214792, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.554159, "fastp_mqc-generalstats-fastp-pct_surviving": 98.28743708975098, "fastp_mqc-generalstats-fastp-pct_adapter": 93.16191351114416, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_JIG_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 89.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 69.0884826660218, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 19073531, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 69.30745800313024, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 28088428, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_JIG_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 66.30713696943809, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 28088428, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_JIG_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 69.58993272228052, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 79.79670234019898, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 77, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 27607396, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 69.58993272228052, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 79.79670234019898, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 77, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 27.27272727272727, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 27607396 }, { "Sample": "1173_JIG_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 67.5548757851184, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 80.55335494155261, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 77, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 27607396, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 67.5548757851184, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 80.55335494155261, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 77, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 27.27272727272727, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 27607396 }, { "Sample": "1173_JLC_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 683574478, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 121.9, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 113, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.07, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.61, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.16, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.87, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 589749792, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007599, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.433664, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 333996736, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.941959, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.967442, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.044624, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.032558, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 314611136, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 158067317, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 14904290, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5319601, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 538.532128, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 250, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.752762, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.642427, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973866, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 125, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 214.75244, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.436984, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.4225, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.839741755425, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.78, "STAR_mqc-generalstats-star-uniquely_mapped": 279493133, "fastp_mqc-generalstats-fastp-pct_duplication": 24.6756, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972765, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 67297994833, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 589749792, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.565223, "fastp_mqc-generalstats-fastp-pct_surviving": 98.29163199999999, "fastp_mqc-generalstats-fastp-pct_adapter": 71.87668066666667, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_JLC_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 121.9, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.00033706497688, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 288978392, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 88.28232571953532, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 745236894, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_JLC_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.73910254448063, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 745236894, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_JLC_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.48892663224487, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 117.16923022501041, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294874896, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.48892663224487, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 117.16923022501041, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 27.27272727272727, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294874896 }, { "Sample": "1173_JLC_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.18158892199715, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 117.43588696679015, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 122, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294874896, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.18158892199715, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 117.43588696679015, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 122, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294874896 }, { "Sample": "1173_JLC_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 646126443, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 130.5, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 121, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.58, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.84, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 588698014, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008387, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.420641, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 341067582, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.941763, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.969515, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.04376, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.030485, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 321204959, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 161469706, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 14924950, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5077232, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 574.575783, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 269, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.757426, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.650984, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.972834, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 138, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 255.97124199999996, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.424199, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.3463, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.8434428589989, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.6, "STAR_mqc-generalstats-star-uniquely_mapped": 278451040, "fastp_mqc-generalstats-fastp-pct_duplication": 24.8799, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971588, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 69831525615, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 588698014, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.568365, "fastp_mqc-generalstats-fastp-pct_surviving": 98.11633566666667, "fastp_mqc-generalstats-fastp-pct_adapter": 67.05026666666667, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_JLC_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 130.5, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.93643910611188, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 288274936, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.2180884278821, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 572840546, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_JLC_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.30887908155127, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 572840546, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_JLC_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.51568900240345, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 121.95601829225808, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 127, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294349007, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.51568900240345, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 121.95601829225808, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 127, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294349007 }, { "Sample": "1173_JLC_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.12198727958852, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 122.21111956052904, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 127, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294349007, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.12198727958852, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 122.21111956052904, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 127, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294349007 }, { "Sample": "1173_JXL_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 458852873, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 120.3, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 111, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.09, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.51, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.46, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.16, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 4.15, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.66, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 531893406, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006695, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.473199, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 280201962, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.942629, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.967135, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.044663, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.032865, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 264126449, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 132542310, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 12514599, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4504027, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 448.600396, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 143, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.65008, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.542818, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.97443, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 117, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 217.402423, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.476388, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0.0024000000000000002, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.5403, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 81.83978694769385, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.45, "STAR_mqc-generalstats-star-uniquely_mapped": 251176381, "fastp_mqc-generalstats-fastp-pct_duplication": 26.880399999999998, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.973413, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 59532140161, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 531893406, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.519162, "fastp_mqc-generalstats-fastp-pct_surviving": 98.43002296595769, "fastp_mqc-generalstats-fastp-pct_adapter": 73.59188323569623, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_JXL_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 120.3, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.99733219478942, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 260620674, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.53727306513399, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 51, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 270188602, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_JXL_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.45651453892255, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 270188602, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_JXL_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.56312880939448, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 51, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 114.82343297935151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 265946703, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.56312880939448, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 51, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 114.82343297935151, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 265946703 }, { "Sample": "1173_JXL_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.68180934547979, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 115.13090096100947, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 265946703, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.68180934547979, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 52, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 115.13090096100947, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 265946703 }, { "Sample": "1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 546444574, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 126.7, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 117, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.06, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.43, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.46, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.1, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 4.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.67, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 589883692, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006485, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.462914, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 316818529, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.945947, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.970745, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.041978, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.029255, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 299693600, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 150528164, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 13299319, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4536343, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 527.991711, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 180, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.668298, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.56822, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973781, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 129, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 256.402082, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.465935, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 9.999999999999999e-05, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.8291, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 87.5072843464803, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 95.24, "STAR_mqc-generalstats-star-uniquely_mapped": 280915608, "fastp_mqc-generalstats-fastp-pct_duplication": 25.8822, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972745, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 68416756955, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 589883692, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.528891, "fastp_mqc-generalstats-fastp-pct_surviving": 98.31394866666666, "fastp_mqc-generalstats-fastp-pct_adapter": 70.37200933333332, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 126.7, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.45474622817679, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 290384246, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.48955630544827, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 401190922, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.44651835030662, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 401190922, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.02275983929589, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 119.09463186515758, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 122, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294941846, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 85.02275983929589, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 52, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 119.09463186515758, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 122, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294941846 }, { "Sample": "1173_JXL_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.15294930588826, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 119.36060748734855, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 122, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294941846, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.15294930588826, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 119.36060748734855, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 122, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294941846 }, { "Sample": "1173_K3O_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 62762443, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 94, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 90, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.9, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.3, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.59, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.46, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 28389066, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008155, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.206597, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 22523975, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.942379, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.958525, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.047342, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.041475, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 21226132, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 10615412, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 1066338, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 459326, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 26.917807, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 10, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.248786, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.054051, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.975025, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 90, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 102.550352, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.208295, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 96.9407, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 84.07217581374286, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.11, "STAR_mqc-generalstats-star-uniquely_mapped": 13358527, "fastp_mqc-generalstats-fastp-pct_duplication": 7.825699999999999, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.973825, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 2634023042, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 28389066, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.559511, "fastp_mqc-generalstats-fastp-pct_surviving": 98.25944572927003, "fastp_mqc-generalstats-fastp-pct_adapter": 93.52674617348377, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_K3O_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 94, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.52442718615681, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 13843137, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 44.08999993481382, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 14445973, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_K3O_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 40.47606862885643, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 14445973, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_K3O_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 43.88762595198317, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 95.06047990448154, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 92, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 14194533, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 43.88762595198317, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 95.06047990448154, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 92, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 14194533 }, { "Sample": "1173_K3O_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 40.98758280318408, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 95.48798646633884, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 92, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 0, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 14194533, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 40.98758280318408, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 95.48798646633884, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 92, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 0, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 14194533 }, { "Sample": "1173_K3O_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 95584731, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 100.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 97, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.82, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.3, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.43, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.46, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 294192922, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.00976, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.623709, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 110702001, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.908749, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.941752, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.065314, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.058248, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 100600299, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 50255735, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 7230402, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3108347, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 129.868944, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 59, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.629519, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.373432, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973335, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 97, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 112.366313, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.629857, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 96.7547, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 83.00155555693891, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.59, "STAR_mqc-generalstats-star-uniquely_mapped": 137671362, "fastp_mqc-generalstats-fastp-pct_duplication": 25.7011, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971854, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 28910842485, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 294192922, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.564712, "fastp_mqc-generalstats-fastp-pct_surviving": 98.1049083766814, "fastp_mqc-generalstats-fastp-pct_adapter": 91.11930236034617, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_K3O_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 100.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.52574400821241, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 143456918, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 76.63985612375231, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 149937922, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_K3O_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 74.48454211148851, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 149937922, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_K3O_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 76.60258838565646, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 100.89714108077692, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 147096461, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 76.60258838565646, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 100.89714108077692, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 147096461 }, { "Sample": "1173_K3O_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 75.80605790838472, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 101.33280702789988, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 147096461, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 75.80605790838472, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 101.33280702789988, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 147096461 }, { "Sample": "1173_K7E_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 231236743, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Yes", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 100.5, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 95, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 2.48, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.59, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 6.54, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.87, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 590989950, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.005984, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.615329, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 227336524, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.927105, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.9512, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.057339, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.0488, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 210764930, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 105434479, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 13035341, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5409136, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 291.034733, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 108, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.655386, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.513055, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974877, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 96, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 120.310212, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.619033, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 9.999999999999999e-05, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.1799, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 85.2274681117979, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.57, "STAR_mqc-generalstats-star-uniquely_mapped": 279463987, "fastp_mqc-generalstats-fastp-pct_duplication": 24.4253, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.97382, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 58679684459, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 590989950, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.535918, "fastp_mqc-generalstats-fastp-pct_surviving": 98.498325, "fastp_mqc-generalstats-fastp-pct_adapter": 88.9232885, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_K7E_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 100.5, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.88044517508293, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 289231797, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.08832837930962, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 314810355, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_K7E_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.3631576247152, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 314810355, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_K7E_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.7314557625492, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 101.77118614622803, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295494975, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.7314557625492, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 101.77118614622803, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295494975 }, { "Sample": "1173_K7E_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.96405536809121, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 102.14115857976942, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295494975, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 80.96405536809121, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 102.14115857976942, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295494975 }, { "Sample": "1173_K7E_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 207831911, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 103.6, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 99, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 2.39, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.6, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 6.38, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.89, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 430250586, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006923, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.554491, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 191680581, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.932139, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.956913, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.052321, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.043087, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 178672994, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 89369555, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 10028999, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4024021, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 252.906658, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 94, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.641231, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.490598, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974564, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 99, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 125.799013, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.558356, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.1071, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 84.61748481280739, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.22, "STAR_mqc-generalstats-star-uniquely_mapped": 202690988, "fastp_mqc-generalstats-fastp-pct_duplication": 23.6768, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.973297, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 43687765058, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 430250586, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.542793, "fastp_mqc-generalstats-fastp-pct_surviving": 98.20039513365838, "fastp_mqc-generalstats-fastp-pct_adapter": 87.60505185510166, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_K7E_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 103.6, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.96450991934267, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 210746439, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 79.85653213790931, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 219067645, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_K7E_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 77.56605776353322, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 219067645, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_K7E_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 79.82918064383176, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 104.10672222535915, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 215125293, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 79.82918064383176, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 104.10672222535915, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 215125293 }, { "Sample": "1173_K7E_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 78.81610933660829, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 104.537351337855, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 215125293, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 78.81610933660829, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 104.537351337855, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 215125293 }, { "Sample": "1173_KQG_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 402704147, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 114.9, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 106, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.36, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.28, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.59, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 293424850, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.005545, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.383167, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 180994090, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.950915, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.969642, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.040095, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.030358, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 172109925, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 86361409, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 7256995, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 2703846, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 279.545826, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 135, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.729644, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.563023, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973205, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 116, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 188.954667, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.385304, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.6912, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 88.12196057117072, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 95.46, "STAR_mqc-generalstats-star-uniquely_mapped": 140056432, "fastp_mqc-generalstats-fastp-pct_duplication": 17.1813, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972276, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 32126507924, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 293424850, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.543003, "fastp_mqc-generalstats-fastp-pct_surviving": 98.68186453916631, "fastp_mqc-generalstats-fastp-pct_adapter": 77.75719759168035, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_KQG_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 114.9, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.50271713523922, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 144515725, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 77.6234651978942, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 148672125, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_KQG_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 75.66470994926354, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 148672125, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_KQG_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 77.67931093043421, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 112.4734452722733, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 146712425, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 77.67931093043421, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 112.4734452722733, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 146712425 }, { "Sample": "1173_KQG_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 76.65445090258795, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 112.73759360872128, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 146712425, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 76.65445090258795, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 112.73759360872128, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 146712425 }, { "Sample": "1173_KQG_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 503730907, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Yes", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 122.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 114, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.93, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.35, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.09, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.58, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 591207666, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006246, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.46731, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 314930595, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.945603, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.968704, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.042671, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.031297, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 297799195, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 149518250, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 13438502, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4830586, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 510.096792, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 276, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.792008, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.67889, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973436, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 129, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 230.345823, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.470247, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.603, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 88.5706524075922, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 95.39, "STAR_mqc-generalstats-star-uniquely_mapped": 281975367, "fastp_mqc-generalstats-fastp-pct_duplication": 27.914299999999997, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972382, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 67922766288, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 591207666, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.546966, "fastp_mqc-generalstats-fastp-pct_surviving": 98.53461100000001, "fastp_mqc-generalstats-fastp-pct_adapter": 73.02811833333334, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_KQG_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 122.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.50212057297647, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 291176044, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.86496497694435, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 301661002, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_KQG_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.98519974961567, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 301661002, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_KQG_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.92798262710917, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 118.01977223008471, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 122, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295603833, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.92798262710917, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 118.01977223008471, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 122, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295603833 }, { "Sample": "1173_KQG_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.14497028393282, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 118.2723206535688, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 122, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295603833, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.14497028393282, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 118.2723206535688, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 122, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295603833 }, { "Sample": "1173_KRT_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 3706642, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 105.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 98, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.49, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.28, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 1.57, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.52, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 20603440, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.011666, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.819158, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 3725974, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.809913, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.880806, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.125576, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.119194, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 3017713, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 1499405, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 467894, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 202906, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 3.914352, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 1, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.017297, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.002216, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.970453, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 99, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 120.22737900000001, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.828827, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 95.7903, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 70.50993639628325, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 90.38, "STAR_mqc-generalstats-star-uniquely_mapped": 9311093, "fastp_mqc-generalstats-fastp-pct_duplication": 39.6449, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.967929, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 2061557017, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 20603440, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.605383, "fastp_mqc-generalstats-fastp-pct_surviving": 95.75416072989296, "fastp_mqc-generalstats-fastp-pct_adapter": 85.51816055551936, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_KRT_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 105.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 96.22829974023756, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 9913170, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.846079566748, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 36.36363636363637, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 10758509, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_KRT_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.34948376602004, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 36.36363636363637, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 10758509, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_KRT_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.6810241616586, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 60, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 102.99417864201318, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 10301720, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.6810241616586, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 60, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 102.99417864201318, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 10301720 }, { "Sample": "1173_KRT_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.34905927252115, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 60, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 103.74718969259503, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 10301720, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.34905927252115, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 60, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 103.74718969259503, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 27.27272727272727, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 10301720 }, { "Sample": "1173_KTN_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 194266469, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 100.5, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 96, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.81, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.33, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.05, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.42, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.51, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 592305754, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007198, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.644211, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 210735746, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.922254, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.950431, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.057515, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.049569, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 194351804, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 97239983, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 12120544, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5071462, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 264.381908, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 115, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.691604, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.526914, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974754, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 98, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 126.178942, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.648882, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.6263, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.52871692248671, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.92, "STAR_mqc-generalstats-star-uniquely_mapped": 281121991, "fastp_mqc-generalstats-fastp-pct_duplication": 26.9912, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.97381, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 58777534428, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 592305754, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.540458, "fastp_mqc-generalstats-fastp-pct_surviving": 98.71762566666666, "fastp_mqc-generalstats-fastp-pct_adapter": 89.620495, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_KTN_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 100.5, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.20201949279054, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 290828106, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.32639254549592, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 51, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 347602978, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_KTN_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.55129537362694, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 347602978, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_KTN_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.12203960958385, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 101.7362453683001, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 296152877, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.12203960958385, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 101.7362453683001, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 296152877 }, { "Sample": "1173_KTN_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.20678952742496, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 102.06556737924244, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 296152877, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.20678952742496, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 102.06556737924244, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 296152877 }, { "Sample": "1173_KTN_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 175772744, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 105.7, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 101, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.76, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.33, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.32, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.51, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 442110440, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008137, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.587373, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 182426653, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.928795, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.957019, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.051484, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.042981, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 169436934, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 84802795, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 9392061, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3808598, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 241.253146, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 107, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.684907, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.51451, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.976242, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 104, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 139.966188, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.592192, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.5972, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.2628109544321, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.63, "STAR_mqc-generalstats-star-uniquely_mapped": 209192726, "fastp_mqc-generalstats-fastp-pct_duplication": 28.9549, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.975145, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 45903326029, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 442110440, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.54424, "fastp_mqc-generalstats-fastp-pct_surviving": 98.43306586458445, "fastp_mqc-generalstats-fastp-pct_adapter": 87.0998170853583, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_KTN_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 105.7, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.30772238719358, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 217314352, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.35284322224966, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 224574149, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_KTN_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 78.30667506954366, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 224574149, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_KTN_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.32837692799738, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 106.30140076312153, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 221055220, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 80.32837692799738, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 106.30140076312153, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 221055220 }, { "Sample": "1173_KTN_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 79.46769098098719, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 106.63896102068976, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 221055220, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 79.46769098098719, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 106.63896102068976, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 221055220 }, { "Sample": "1173_LAF_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 35973504, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 83.9, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 80, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.72, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.3, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.06, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.08, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.46, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 91759492, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.015733, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.60789, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 35979849, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.87468, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.918539, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.085197, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.081461, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 31470843, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 15716389, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 3065383, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 1393814, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 35.539485, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 11, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.309327, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.092247, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.972528, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 73, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 80.706292, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.617606, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0.062200000000000005, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 84.9259, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 31.72916111043752, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 75.36, "STAR_mqc-generalstats-star-uniquely_mapped": 34576692, "fastp_mqc-generalstats-fastp-pct_duplication": 13.7873, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.97077, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 7177169805, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 91759492, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.568182, "fastp_mqc-generalstats-fastp-pct_surviving": 98.07316585117066, "fastp_mqc-generalstats-fastp-pct_adapter": 96.32052582898737, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_LAF_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 83.9, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 81.13729749070538, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 37225586, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 75.4936991501248, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 46781141, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_LAF_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 72.56704939770445, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 36.36363636363637, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 46781141, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_LAF_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 75.59819476675392, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 80.20872879287518, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 77, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 45879746, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 75.59819476675392, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 80.20872879287518, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 77, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 27.27272727272727, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 45879746 }, { "Sample": "1173_LAF_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 73.78213447226744, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 80.93923344736913, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 77, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 45879746, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 73.78213447226744, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 80.93923344736913, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 77, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 27.27272727272727, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 45879746 }, { "Sample": "1173_LAF_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 52965574, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 90.4, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 87, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.68, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.32, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.48, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 159812694, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.012843, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.647413, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 56347945, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.893779, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.936529, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.069795, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.063471, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 50362592, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 25137104, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 3932804, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 1703615, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 59.929275, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 23, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.446346, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.177003, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.969201, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 81, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 91.725498, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.655836, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0.009899999999999999, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 88.6678, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 42.18368129308439, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 81.37, "STAR_mqc-generalstats-star-uniquely_mapped": 65018122, "fastp_mqc-generalstats-fastp-pct_duplication": 17.2195, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.967509, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 13622815855, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 159812694, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.57699, "fastp_mqc-generalstats-fastp-pct_surviving": 97.90883463310568, "fastp_mqc-generalstats-fastp-pct_adapter": 94.92283154364726, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_LAF_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 90.4, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 87.26477509978025, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 69730094, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.0452314958463, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 81613010, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_LAF_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 77.01650796105184, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 81613010, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_LAF_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.11635859265097, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 87.71731201778002, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 87, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 79906347, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 80.11635859265097, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 87.71731201778002, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 87, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 27.27272727272727, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 79906347 }, { "Sample": "1173_LAF_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 78.47787800842941, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 88.49077987509553, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 87, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 79906347, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 78.47787800842941, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 88.49077987509553, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 87, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 79906347 }, { "Sample": "1173_LQD_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 524508706, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 118.2, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 111, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.09, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.45, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.09, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.68, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 590002200, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007866, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.459702, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 318776948, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.942127, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.968019, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.043314, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.031981, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 300328223, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 150784522, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 13807520, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4981519, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 495.124392, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 226, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.724527, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.615593, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973215, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 116, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 185.533371, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.463347, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.5654, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.65318336957395, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.97, "STAR_mqc-generalstats-star-uniquely_mapped": 280152140, "fastp_mqc-generalstats-fastp-pct_duplication": 23.580000000000002, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972059, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 65830113710, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 590002200, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.543001, "fastp_mqc-generalstats-fastp-pct_surviving": 98.33370000000001, "fastp_mqc-generalstats-fastp-pct_adapter": 76.75399683333333, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_LQD_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 118.2, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.1588407636446, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 289569660, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.7985366417612, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 448430593, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_LQD_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.74067202552024, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 448430593, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_LQD_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.45916630524542, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 114.6338460161674, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295001100, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.45916630524542, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 114.6338460161674, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295001100 }, { "Sample": "1173_LQD_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.51397945140926, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 114.92229535415292, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295001100, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.51397945140926, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 114.92229535415292, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295001100 }, { "Sample": "1173_LV7_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 388258665, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 103.9, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 98, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.55, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.64, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 1.74, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.96, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 585569188, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007795, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.516877, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 282901793, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.933828, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.95953, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.050037, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.04047, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 264181677, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 132084558, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 14155548, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5570964, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 384.983168, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 157, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.683802, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.569096, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973353, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 99, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 128.798295, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.520938, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.44420000000001, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 85.83729228700206, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.62, "STAR_mqc-generalstats-star-uniquely_mapped": 277022470, "fastp_mqc-generalstats-fastp-pct_duplication": 21.4301, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972008, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 59328852199, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 585569188, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.559538, "fastp_mqc-generalstats-fastp-pct_surviving": 97.59486466666667, "fastp_mqc-generalstats-fastp-pct_adapter": 86.13551066666668, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_LV7_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 103.9, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.25131236242574, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 287664706, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.64712158776898, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 545996875, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_LV7_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.66250504814755, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 545996875, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_LV7_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.87816836832324, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 103.99821979362753, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 292784594, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.87816836832324, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 103.99821979362753, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 292784594 }, { "Sample": "1173_LV7_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.64938631036526, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 104.46694636535418, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 292784594, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.64938631036526, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 104.46694636535418, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 292784594 }, { "Sample": "1173_LV7_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 343127021, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 110.8, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 105, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.49, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.64, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 1.57, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.95, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 586600068, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007702, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.524571, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 278886771, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.937916, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.964246, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.045884, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.035754, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 261572318, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 130879004, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 12796329, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4852946, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 401.402623, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 160, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.685846, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.571628, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973465, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 108, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 144.420853, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.528643, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.5963, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.39207734979372, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.76, "STAR_mqc-generalstats-star-uniquely_mapped": 277916565, "fastp_mqc-generalstats-fastp-pct_duplication": 25.231399999999997, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972211, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 62674810890, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 586600068, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.562781, "fastp_mqc-generalstats-fastp-pct_surviving": 97.766678, "fastp_mqc-generalstats-fastp-pct_adapter": 82.48736166666667, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_LV7_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 110.8, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.48836771699794, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 288866416, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.67833096942192, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 339025373, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_LV7_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.96458976027564, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 339025373, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_LV7_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.88558925108048, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 109.69447037295605, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 293300034, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.88558925108048, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 109.69447037295605, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 293300034 }, { "Sample": "1173_LV7_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.89083104122427, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 110.0931976298373, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 293300034, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.89083104122427, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 110.0931976298373, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 293300034 }, { "Sample": "1173_M2F_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 216262817, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 97.7, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 92, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.97, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.28, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.06, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.78, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.44, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 467330428, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.00608, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.566109, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 202770699, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.931804, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.954153, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.054183, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.045847, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 188942467, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 94565774, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 10986760, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4543894, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 258.780715, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 116, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.695496, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.52897, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.975619, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 93, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 118.832717, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.569572, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 9.999999999999999e-05, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.2452, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.34523927993104, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 95.06, "STAR_mqc-generalstats-star-uniquely_mapped": 222121958, "fastp_mqc-generalstats-fastp-pct_duplication": 19.9057, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.974764, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 45241116056, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 467330428, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.537735, "fastp_mqc-generalstats-fastp-pct_surviving": 98.76589305087803, "fastp_mqc-generalstats-fastp-pct_adapter": 89.12734718832994, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_M2F_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 97.7, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.16519972031438, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 229377924, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.82765190247858, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 51, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 236584925, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_M2F_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 79.81097450776089, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 236584925, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_M2F_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.80797646791783, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 99.12542470271163, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 233665214, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.80797646791783, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 99.12542470271163, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 233665214 }, { "Sample": "1173_M2F_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.72103632985532, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 99.49656174752653, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 233665214, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 80.72103632985532, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 99.49656174752653, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 233665214 }, { "Sample": "1173_M4Y_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 65381299, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 94.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 91, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.09, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.3, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.08, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.5, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 295889206, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.010447, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.764049, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 69815439, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.855646, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.907134, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.10008, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.092866, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 59737320, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 29716829, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 6987108, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3042190, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 69.987267, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 20, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.428656, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.189264, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.970573, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 92, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 105.192951, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.772115, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 95.4794, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 74.88922482013112, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 91.65, "STAR_mqc-generalstats-star-uniquely_mapped": 135587763, "fastp_mqc-generalstats-fastp-pct_duplication": 28.4216, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.968717, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 27453426778, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 295889206, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.613194, "fastp_mqc-generalstats-fastp-pct_surviving": 97.13782016171729, "fastp_mqc-generalstats-fastp-pct_adapter": 92.99521964689892, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_M4Y_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 94.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 96.44742904207192, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 142688766, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.92395572856873, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 152303812, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_M4Y_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.29123265762308, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 59, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 36.36363636363637, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 152303812, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_M4Y_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.96993018930628, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 60, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 95.42091742271937, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 92, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 147944603, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.96993018930628, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 60, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 95.42091742271937, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 92, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 147944603 }, { "Sample": "1173_M4Y_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.35381813566431, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 61, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 96.13407909175301, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 92, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 147944603, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.35381813566431, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 61, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 96.13407909175301, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 92, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 147944603 }, { "Sample": "1173_M5U_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 347228422, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 108.9, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 103, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.86, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.43, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.04, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.48, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.65, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 589805504, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006958, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.523787, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 280873270, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.938367, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.96273, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.047022, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.037269, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 263562106, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 132048945, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 13207093, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5111913, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 397.73682, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 186, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.725504, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.601595, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974276, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 107, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 149.556001, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.527457, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.3734, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 84.5221628713891, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.12, "STAR_mqc-generalstats-star-uniquely_mapped": 277563914, "fastp_mqc-generalstats-fastp-pct_duplication": 24.412, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.973139, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 62427126629, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 589805504, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.550145, "fastp_mqc-generalstats-fastp-pct_surviving": 98.30091733333333, "fastp_mqc-generalstats-fastp-pct_adapter": 83.58885766666667, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_M5U_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 108.9, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.92787996769864, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 288792013, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.55144610796981, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 459330898, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_M5U_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.91398508722813, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 459330898, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_M5U_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.69961409246629, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 108.59156376743476, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294902752, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.69961409246629, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 108.59156376743476, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294902752 }, { "Sample": "1173_M5U_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.26754724055917, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 108.93119598965289, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294902752, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.26754724055917, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 108.93119598965289, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294902752 }, { "Sample": "1173_M5U_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 228146487, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 112.6, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 107, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.8, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.43, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.33, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.66, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 572460602, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007488, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.581136, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 239783156, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.93505, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.963547, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.047073, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.036453, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 224209117, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 112306068, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 11287289, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4248796, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 343.38027, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 158, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.710961, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.578584, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973589, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 112, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 160.955499, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.585521, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.3359, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 83.62627755378094, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.69, "STAR_mqc-generalstats-star-uniquely_mapped": 268168912, "fastp_mqc-generalstats-fastp-pct_duplication": 30.621199999999998, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972358, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 62281003295, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 572460602, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.556751, "fastp_mqc-generalstats-fastp-pct_surviving": 98.04863350979579, "fastp_mqc-generalstats-fastp-pct_adapter": 81.2658027594199, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_M5U_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 112.6, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.87816594581997, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 280156969, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.97015865612639, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 291926864, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_M5U_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.49366621574839, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 291926864, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_M5U_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.06039678119487, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 111.70821067962333, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 286230301, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.06039678119487, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 111.70821067962333, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 286230301 }, { "Sample": "1173_M5U_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.08302402692033, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 112.05965714999545, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 286230301, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.08302402692033, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 112.05965714999545, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 286230301 }, { "Sample": "1173_MHK_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 360663119, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 113.9, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 108, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.36, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.05, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.6, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 588669030, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.009134, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.501181, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 293638972, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.930093, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.95817, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.051595, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.04183, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 273111636, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 136827087, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 15150308, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5973299, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 424.540386, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 211, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.746614, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.625537, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973055, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 111, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 151.523899, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.505802, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.2985, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 82.80683857357351, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.51, "STAR_mqc-generalstats-star-uniquely_mapped": 275230734, "fastp_mqc-generalstats-fastp-pct_duplication": 29.695700000000002, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971822, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 64183114648, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 588669030, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.553569, "fastp_mqc-generalstats-fastp-pct_surviving": 98.111505, "fastp_mqc-generalstats-fastp-pct_adapter": 81.42338649999999, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_MHK_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 113.9, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.03107291035847, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 288539283, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.7681707477749, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 467001291, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_MHK_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.85195056974126, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 467001291, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_MHK_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.76008076476164, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 112.01848423043421, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294334515, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.76008076476164, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 112.01848423043421, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294334515 }, { "Sample": "1173_MHK_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.36916032065017, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 112.35629985154816, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294334515, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.36916032065017, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 112.35629985154816, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294334515 }, { "Sample": "1173_N5V_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 238931848, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 99.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 94, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.9, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.41, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.58, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.56, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 402035990, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.005258, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.513066, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 195765111, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.935777, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.954249, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.053426, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.045751, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 183192529, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 91681520, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 10458857, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4395656, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 250.112856, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 105, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.66787, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.509913, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974872, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 94, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 114.55855700000001, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.515777, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.1015, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.36139869891448, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.75, "STAR_mqc-generalstats-star-uniquely_mapped": 190457548, "fastp_mqc-generalstats-fastp-pct_duplication": 20.3762, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.974031, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 39273037201, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 402035990, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.525393, "fastp_mqc-generalstats-fastp-pct_surviving": 98.70116330463314, "fastp_mqc-generalstats-fastp-pct_adapter": 90.00023804000219, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_N5V_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 99.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.26962158288366, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 197539623, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.79220505828485, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 50, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 203663248, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_N5V_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.09300624746345, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 203663248, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_N5V_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.86847386389027, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 100.11640555861678, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 201017995, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.86847386389027, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 52, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 100.11640555861678, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 201017995 }, { "Sample": "1173_N5V_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.08302101422078, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 100.4571451277285, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 201017995, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.08302101422078, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 52, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 100.4571451277285, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 201017995 }, { "Sample": "1173_NBF_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 303160188, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 105, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 99, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.27, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.5, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.04, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.48, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.69, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 471579430, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008058, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.507135, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 232425031, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.935728, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.960944, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.047923, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.039056, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 217486620, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 108974062, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 11138397, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4429033, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 316.011909, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 140, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.698218, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.55752, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.975109, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 100, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 132.956348, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.511255, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 9.999999999999999e-05, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.31490000000001, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 85.47098088384601, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.55, "STAR_mqc-generalstats-star-uniquely_mapped": 222946142, "fastp_mqc-generalstats-fastp-pct_duplication": 23.6338, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.974129, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 48033992545, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 471579430, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.524289, "fastp_mqc-generalstats-fastp-pct_surviving": 98.52897553509919, "fastp_mqc-generalstats-fastp-pct_adapter": 86.04426511611565, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NBF_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 105, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.30707331742609, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 231797968, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.26347285081233, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 51, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 239310024, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NBF_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.36865678452078, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 239310024, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NBF_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.30621715130246, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 104.39201609366211, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 235789715, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.30621715130246, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 52, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 104.39201609366211, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 235789715 }, { "Sample": "1173_NBF_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.51031660517766, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 104.72627418884662, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 235789715, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.51031660517766, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 52, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 104.72627418884662, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 235789715 }, { "Sample": "1173_NFO_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 119616085, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 99.8, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 95, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.55, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.26, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 1.73, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.44, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 589230716, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008981, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.762055, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 140204364, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.879006, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.924107, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.083248, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.075893, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 123240429, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 61556153, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 11671784, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5055363, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 160.076522, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 59, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.616584, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.393854, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973264, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 97, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 115.227345, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.768962, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 96.9147, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 82.79818141778883, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.88, "STAR_mqc-generalstats-star-uniquely_mapped": 276572804, "fastp_mqc-generalstats-fastp-pct_duplication": 34.0996, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971946, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 58050122644, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 589230716, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.593262, "fastp_mqc-generalstats-fastp-pct_surviving": 98.20511933333333, "fastp_mqc-generalstats-fastp-pct_adapter": 90.26445366666667, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NFO_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 99.8, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.72797452059508, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 287921622, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.71430949185131, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 324005525, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NFO_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.67168411362482, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 324005525, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NFO_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.22903420559429, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 59, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 101.1491950361936, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294615358, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 87.22903420559429, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 59, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 101.1491950361936, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294615358 }, { "Sample": "1173_NFO_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.64327806534692, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 59, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 101.56849012942496, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294615358, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 86.64327806534692, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 59, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 101.56849012942496, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294615358 }, { "Sample": "1173_NFO_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 82458225, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 105.2, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 100, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.51, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.25, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 1.61, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.43, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 434487944, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.009783, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.772774, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 98726812, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.87566, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.927215, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.081287, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.072785, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 86451150, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 43152123, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 8025189, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3387362, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 115.719422, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 42, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.56523, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.315377, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.972506, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 102, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 123.611417, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.780409, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 96.6867, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 81.30625391480062, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.38, "STAR_mqc-generalstats-star-uniquely_mapped": 202868384, "fastp_mqc-generalstats-fastp-pct_duplication": 47.7167, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.970982, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 44428862502, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 434487944, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.594515, "fastp_mqc-generalstats-fastp-pct_surviving": 97.65243110034257, "fastp_mqc-generalstats-fastp-pct_adapter": 87.10699317924804, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NFO_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 105.2, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.62401002316419, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 212082277, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.43993837247604, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 222466527, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NFO_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.34940596292925, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 222466527, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NFO_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.50892343651446, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 59, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 105.07561338456838, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 217243972, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 87.50892343651446, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 59, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 105.07561338456838, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 217243972 }, { "Sample": "1173_NFO_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.23723632464902, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 59, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 105.54031466060655, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 217243972, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 87.23723632464902, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 59, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 105.54031466060655, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 217243972 }, { "Sample": "1173_NMN_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 365493050, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Yes", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 110.2, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 104, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.16, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.33, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.56, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.56, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 535830628, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008265, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.47953, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 278883915, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.931566, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.95794, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.052555, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.04206, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 259798634, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 130015804, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 14656810, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5708534, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 393.086696, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 197, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.751789, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.621881, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.972634, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 105, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 137.717266, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.483526, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.0342, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 83.28057301634615, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.75, "STAR_mqc-generalstats-star-uniquely_mapped": 251169946, "fastp_mqc-generalstats-fastp-pct_duplication": 22.261, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971359, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 56493498549, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 535830628, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.561846, "fastp_mqc-generalstats-fastp-pct_surviving": 97.86085548671385, "fastp_mqc-generalstats-fastp-pct_adapter": 82.74106512241737, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NMN_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 110.2, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.0630886967514, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 262726032, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.6241728101744, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 273771686, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NMN_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 79.406432934199, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 273771686, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NMN_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.58655141377761, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 108.31409723372514, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 267915314, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.58655141377761, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 108.31409723372514, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 267915314 }, { "Sample": "1173_NMN_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.03338757736549, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 108.75813830858507, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 267915314, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.03338757736549, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 108.75813830858507, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 267915314 }, { "Sample": "1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 278828175, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 114.7, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 108, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.3, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.21, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.52, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 515542990, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008824, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.514609, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 250240209, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.93193, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.961311, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.04989, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.038689, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 233206467, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 116733684, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 12484451, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4698039, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 362.707519, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 175, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.742464, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.603858, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973102, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 111, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 147.219704, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.51919, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.1765, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 83.47841459677299, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.69, "STAR_mqc-generalstats-star-uniquely_mapped": 241499362, "fastp_mqc-generalstats-fastp-pct_duplication": 28.309800000000003, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971741, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 56144590115, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 515542990, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.565723, "fastp_mqc-generalstats-fastp-pct_surviving": 97.63161032701696, "fastp_mqc-generalstats-fastp-pct_adapter": 80.21611957433046, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 114.7, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.29661576816319, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 253380656, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.05698660504208, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 264024627, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.74386661830498, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 264024627, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.07016435893158, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 111.85671453703598, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 257771495, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.07016435893158, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 111.85671453703598, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 257771495 }, { "Sample": "1173_NMN_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.54176221746431, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 112.27561901287805, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 257771495, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.54176221746431, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 112.27561901287805, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 257771495 }, { "Sample": "1173_NWE_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 622728202, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Yes", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0.06, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 120.3, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 110, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.56, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.57, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.05, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 4.51, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.84, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 591978278, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.005712, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.457766, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 320990515, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.947698, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.969994, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.041768, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.030006, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 304202200, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 152864940, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 13407217, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4728706, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 523.163817, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 218, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.735141, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.619375, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974588, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 121, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 225.919617, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.460396, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.84049999999999, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 88.950424658331, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 95.73, "STAR_mqc-generalstats-star-uniquely_mapped": 283336692, "fastp_mqc-generalstats-fastp-pct_duplication": 22.689899999999998, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.973666, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 66643830778, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 591978278, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.533178, "fastp_mqc-generalstats-fastp-pct_surviving": 98.66304633333334, "fastp_mqc-generalstats-fastp-pct_adapter": 72.659117, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NWE_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 120.3, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.42725580549089, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 291333987, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.05076057808822, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 51, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 647600390, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NWE_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.49539589367834, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 647600390, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NWE_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.97344599772077, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 115.49777679511409, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295989139, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.97344599772077, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 115.49777679511409, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 27.27272727272727, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295989139 }, { "Sample": "1173_NWE_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.163431483124, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 115.73851071271909, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295989139, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.163431483124, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 115.73851071271909, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295989139 }, { "Sample": "1173_NWE_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 630378555, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Yes", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0.09, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 126.7, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 117, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.49, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.56, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 4.39, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.85, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 590787476, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006079, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.439763, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 330981188, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.947896, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.97114, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.041253, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.02886, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 313735638, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 157707626, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 13654111, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4686734, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 558.105332, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 244, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.743488, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.633048, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.9742, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 133, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 272.254292, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.442452, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.7604, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 89.66314675395431, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 95.71, "STAR_mqc-generalstats-star-uniquely_mapped": 282729065, "fastp_mqc-generalstats-fastp-pct_duplication": 25.2205, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.973179, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 68954177514, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 590787476, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.532583, "fastp_mqc-generalstats-fastp-pct_surviving": 98.46457933333333, "fastp_mqc-generalstats-fastp-pct_adapter": 69.24443616666667, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NWE_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 126.7, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.40767172931743, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 290690100, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.26087097390158, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 609856960, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NWE_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.41653356592616, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 609856960, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_NWE_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.34937380838772, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 119.81200985377693, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 122, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295393738, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.34937380838772, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 52, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 119.81200985377693, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 122, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295393738 }, { "Sample": "1173_NWE_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.5816568581307, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 120.04191775047039, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 122, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295393738, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.5816568581307, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 120.04191775047039, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 122, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295393738 }, { "Sample": "1173_OHF_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 10154472, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Skipped", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": "N/A", "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 91.9, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 89, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.34, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.19, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 1.05, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.29, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 8725292, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.011375, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.311625, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 6006273, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.922297, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.944085, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.06118, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.055915, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 5539565, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 2769321, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 367462, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 164018, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 6.725186, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 2, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.046703, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.005554, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974758, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 88, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 97.614747, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.31521, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 96.525, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 81.53110181006045, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.62, "STAR_mqc-generalstats-star-uniquely_mapped": 4084158, "fastp_mqc-generalstats-fastp-pct_duplication": 10.774799999999999, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.973611, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 789473218, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 8725292, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.572958, "fastp_mqc-generalstats-fastp-pct_surviving": 97.86909378383241, "fastp_mqc-generalstats-fastp-pct_adapter": 94.80204072384588, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_OHF_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 91.9, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.02957792128906, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 4233057, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 44.98500970205394, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 4457634, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_OHF_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 40.94989247006748, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 4457634, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_OHF_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 44.558549485439194, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 92.70769207494718, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 92, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 4362646, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 44.558549485439194, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 92.70769207494718, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 92, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 4362646 }, { "Sample": "1173_OHF_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 41.22311869691946, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 93.15813361890926, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 92, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 0, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 4362646, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 41.22311869691946, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 93.15813361890926, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 92, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 0, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 4362646 }, { "Sample": "1173_PCB_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 268691964, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 105.5, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 100, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.18, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.28, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.6, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.47, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 210238966, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006975, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.355028, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 135598308, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.943424, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.961757, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.045761, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.038243, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 127926692, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 64036228, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 6205100, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 2546288, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 184.431946, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 82, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.660305, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.458123, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.975009, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 99, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 124.97676099999998, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.357522, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.391, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.44894976095283, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.77, "STAR_mqc-generalstats-star-uniquely_mapped": 99621892, "fastp_mqc-generalstats-fastp-pct_duplication": 12.7453, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.973926, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 21370717959, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 210238966, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.53716, "fastp_mqc-generalstats-fastp-pct_surviving": 98.45489123954428, "fastp_mqc-generalstats-fastp-pct_adapter": 86.81749583117069, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_PCB_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 105.5, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.02802302595039, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 103046551, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 68.57971131777275, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 51, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 106769183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_PCB_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 66.2960875684231, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 106769183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_PCB_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 68.5394046000954, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 104.19510371830881, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 105119483, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 68.5394046000954, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 104.19510371830881, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 105119483 }, { "Sample": "1173_PCB_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 67.23337479201022, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 104.53956922524058, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 105119483, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 67.23337479201022, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 104.53956922524058, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 105119483 }, { "Sample": "1173_PCB_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 291940231, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Yes", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0.65, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 112.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 106, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.06, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.27, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.36, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.47, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 461947406, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008069, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.48114, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 239685830, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.935337, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.959857, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.049111, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.040143, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 224187033, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 112237018, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 11771296, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4693910, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 340.054575, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 171, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.738118, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.599514, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974278, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 108, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 140.024077, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.485054, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.3302, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.16597103738806, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.48, "STAR_mqc-generalstats-star-uniquely_mapped": 218213184, "fastp_mqc-generalstats-fastp-pct_duplication": 23.3903, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972973, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 49590101294, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 461947406, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.54448, "fastp_mqc-generalstats-fastp-pct_surviving": 98.14067886614029, "fastp_mqc-generalstats-fastp-pct_adapter": 82.74845522581028, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_PCB_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 112.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.14862863414369, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 226697522, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 76.21306268313252, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 235349608, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_PCB_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 74.77423885179275, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 235349608, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_PCB_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 76.23824889582288, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 110.15532400240386, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 230973703, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 76.23824889582288, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 110.15532400240386, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 230973703 }, { "Sample": "1173_PCB_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 76.127371836837, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 110.4998501799142, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 230973703, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 76.127371836837, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 110.4998501799142, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 230973703 }, { "Sample": "1173_Q7O_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 466487892, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Yes", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0.02, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 110.6, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 104, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.96, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.33, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.92, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.5, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 588976610, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007609, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.480553, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 305942307, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.932608, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.956709, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.052743, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.043291, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 285324268, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 142954552, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 16136348, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 6468649, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 443.105042, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 204, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.724513, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.607956, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974058, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 108, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 148.09731, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.484237, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.0077, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.84217801043813, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.8, "STAR_mqc-generalstats-star-uniquely_mapped": 279189079, "fastp_mqc-generalstats-fastp-pct_duplication": 23.015, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972951, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 63114306288, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 588976610, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.538251, "fastp_mqc-generalstats-fastp-pct_surviving": 98.16276833333333, "fastp_mqc-generalstats-fastp-pct_adapter": 81.28702833333334, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_Q7O_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 110.6, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.04673567597192, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 288736170, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.9532158849972, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 451227269, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_Q7O_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.45453787831414, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 451227269, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_Q7O_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.49285426580111, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 109.97122098617804, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294488305, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.49285426580111, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 109.97122098617804, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294488305 }, { "Sample": "1173_Q7O_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.23297109498048, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 110.29710819246286, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294488305, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.23297109498048, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 110.29710819246286, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294488305 }, { "Sample": "1173_Q7O_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 369292620, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Yes", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 115.5, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 109, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.91, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.32, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.83, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.48, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 493511196, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008361, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.468592, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 262255556, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.936207, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.962551, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.048061, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.037449, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 245525383, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 122929749, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 12604136, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4782767, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 393.833595, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 180, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.713204, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.591348, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973594, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 115, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 164.260275, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.472543, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.0722, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.69074764366206, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.55, "STAR_mqc-generalstats-star-uniquely_mapped": 233303573, "fastp_mqc-generalstats-fastp-pct_duplication": 24.5197, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972391, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 54888086477, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 493511196, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.53771, "fastp_mqc-generalstats-fastp-pct_surviving": 97.92993202673917, "fastp_mqc-generalstats-fastp-pct_adapter": 78.22505884106033, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_Q7O_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 115.5, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.29030383335011, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 242536827, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.08558057383829, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 251971581, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_Q7O_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.11222521009032, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 251971581, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_Q7O_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.08001357859887, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 114.19425973063436, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 246755598, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.08001357859887, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 114.19425973063436, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 246755598 }, { "Sample": "1173_Q7O_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.69276681717392, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 114.55059111972001, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 117, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 246755598, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 81.69276681717392, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 114.55059111972001, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 246755598 }, { "Sample": "1173_QEV_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 4302976, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Skipped", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": "N/A", "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 108.4, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 103, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.47, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.25, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 1.59, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.51, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 19648442, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.012376, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.833736, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 3266824, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.782601, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.860369, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.142963, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.139631, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 2556621, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 1269175, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 467035, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 205977, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 3.329371, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 1, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.012363, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.001467, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.968294, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 106, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 129.64163, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.844184, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 9.999999999999999e-05, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 96.0068, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 76.26234334156997, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 91.69, "STAR_mqc-generalstats-star-uniquely_mapped": 9007451, "fastp_mqc-generalstats-fastp-pct_duplication": 43.6251, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.966076, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 2038011197, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 19648442, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.610859, "fastp_mqc-generalstats-fastp-pct_surviving": 94.2418688478922, "fastp_mqc-generalstats-fastp-pct_adapter": 83.83672714100929, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_QEV_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 108.4, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 96.513667597665, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 9481716, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.62270785234054, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 36.36363636363637, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 10424476, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_QEV_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.1706466270357, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 60, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 36.36363636363637, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 10424476, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_QEV_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.1835293005258, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 60, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 107.05101636048293, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 9824221, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.1835293005258, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 60, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 107.05101636048293, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 9824221 }, { "Sample": "1173_QEV_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.83451256592173, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 61, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 107.66893945077172, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 9824221, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.83451256592173, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 61, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 107.66893945077172, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 9824221 }, { "Sample": "1173_QJL_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 273760601, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 104.4, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 98, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.08, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.3, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.31, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.16, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.64, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.47, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 309884076, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006443, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.436439, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 174638594, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.941721, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.962, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.046845, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.038, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 164460902, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 82387027, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 8180976, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3254340, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 238.597933, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 102, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.681832, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.504631, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.974723, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 100, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 131.666627, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.439269, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 9.999999999999999e-05, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.4239, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 85.05960204256074, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.65, "STAR_mqc-generalstats-star-uniquely_mapped": 146651871, "fastp_mqc-generalstats-fastp-pct_duplication": 18.377299999999998, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.97372, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 31492866530, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 309884076, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.546293, "fastp_mqc-generalstats-fastp-pct_surviving": 98.43244986638705, "fastp_mqc-generalstats-fastp-pct_adapter": 86.21684365692491, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_QJL_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 104.4, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.22897901988355, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 152197982, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 77.01903081232805, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 157409511, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_QJL_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 74.61779997059348, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 157409511, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_QJL_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 77.01333857226604, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 104.18970568206932, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 154942038, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 77.01333857226604, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 104.18970568206932, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 154942038 }, { "Sample": "1173_QJL_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 75.75340709295605, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 104.54492212113539, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 154942038, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 75.75340709295605, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 104.54492212113539, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 154942038 }, { "Sample": "1173_QJL_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 282429261, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 108.2, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 102, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.05, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.21, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.31, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.09, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.47, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.48, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 478513910, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007316, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.505533, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 236609189, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.936288, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.961081, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.048916, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.038919, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 221534390, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 110986634, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 11573993, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4494417, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 330.538124, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 151, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.723054, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.575788, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.97557, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 105, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 144.110302, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.509259, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.3304, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 84.35171141571968, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.27, "STAR_mqc-generalstats-star-uniquely_mapped": 225546528, "fastp_mqc-generalstats-fastp-pct_duplication": 23.5369, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.97435, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 50393816437, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 478513910, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.557744, "fastp_mqc-generalstats-fastp-pct_surviving": 98.17330779290317, "fastp_mqc-generalstats-fastp-pct_adapter": 83.46142693497883, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_QJL_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 108.2, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.21878991981654, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 234995286, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.76491234189415, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 243708764, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_QJL_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 78.35742462975044, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 243708764, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_QJL_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.76553781783498, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 107.8906321239439, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 239256955, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 80.76553781783498, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 107.8906321239439, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 239256955 }, { "Sample": "1173_QJL_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 79.7365796104756, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 108.27147127238162, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 239256955, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 79.7365796104756, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 108.27147127238162, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 239256955 }, { "Sample": "1173_RDM_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 97887647, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 108.2, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 105, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.89, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.35, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.72, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.6, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 552270522, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.010619, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.787032, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 117615979, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.861587, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.918087, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.088552, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.081914, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 101336332, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 50591550, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 10415135, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4513879, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 136.815059, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 48, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.590774, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.340622, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.972523, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 108, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 130.880126, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.795479, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 96.6707, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 82.3360599385074, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 93.36, "STAR_mqc-generalstats-star-uniquely_mapped": 257808969, "fastp_mqc-generalstats-fastp-pct_duplication": 43.2599, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.970831, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 58435829953, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 552270522, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.595998, "fastp_mqc-generalstats-fastp-pct_surviving": 98.03746356461444, "fastp_mqc-generalstats-fastp-pct_adapter": 86.7426087203502, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RDM_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 108.2, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.45011594154938, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 269094132, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.5479721082579, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 281663000, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RDM_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.70054254985926, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 281663000, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RDM_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.63265711421374, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 59, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 108.79285862373078, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 276135261, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 86.63265711421374, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 59, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 108.79285862373078, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 276135261 }, { "Sample": "1173_RDM_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.21768774984069, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 59, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 109.17664899739117, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 276135261, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 86.21768774984069, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 59, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 109.17664899739117, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 276135261 }, { "Sample": "1173_RDM_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 56065518, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 102.4, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 99, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.87, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.35, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.64, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.6, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 274799746, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.011572, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.757735, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 66574347, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.86524, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.919477, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.086993, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.080523, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 57602821, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 28751337, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 5791518, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 2517891, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 74.980732, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 25, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.467073, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.196346, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973121, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 101, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 120.568211, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.766606, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 96.4902, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 80.7101289355267, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 92.86, "STAR_mqc-generalstats-star-uniquely_mapped": 127584861, "fastp_mqc-generalstats-fastp-pct_duplication": 39.650400000000005, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971223, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 27679492275, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 274799746, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.598026, "fastp_mqc-generalstats-fastp-pct_surviving": 97.8478536964436, "fastp_mqc-generalstats-fastp-pct_adapter": 89.16367987716222, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RDM_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 102.4, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.13311743745207, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 133460780, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.50182785997659, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 140421959, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RDM_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.44300192969001, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 140421959, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RDM_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.5447691390873, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 59, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 103.4647821108248, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 137399873, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.5447691390873, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 59, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 103.4647821108248, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 137399873 }, { "Sample": "1173_RDM_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.08770154785249, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 60, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 103.9508666576424, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 137399873, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.08770154785249, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 60, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 103.9508666576424, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 137399873 }, { "Sample": "1173_RGW_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 32719055, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 94.2, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 92, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.37, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.24, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 1.28, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.51, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 215545380, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.015733, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.851988, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 31903297, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.760614, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.863254, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.133087, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.136746, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 24266103, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 12059699, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 4245914, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 1910350, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 28.046604, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 4, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.191738, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.0587, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.970003, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 94, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 107.220758, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.865607, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 95.3061, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 67.1883617696278, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 88.47, "STAR_mqc-generalstats-star-uniquely_mapped": 95348055, "fastp_mqc-generalstats-fastp-pct_duplication": 38.5069, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.966569, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 20064683352, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 215545380, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.654654, "fastp_mqc-generalstats-fastp-pct_surviving": 97.53776550457442, "fastp_mqc-generalstats-fastp-pct_adapter": 92.89724225254793, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RGW_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 94.2, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 94.97036030185384, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 102352112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.92722734312785, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 60, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 110493294, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RGW_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.62561170029716, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 61, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 110493294, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RGW_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 88.12188613889397, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 65, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 95.91832911473213, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 92, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 107772690, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 88.12188613889397, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 65, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 95.91832911473213, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 92, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 107772690 }, { "Sample": "1173_RGW_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.4318570134307, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 65, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 96.69550247841082, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 107772690, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 87.4318570134307, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 65, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 96.69550247841082, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 107772690 }, { "Sample": "1173_RPC_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 104874615, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 99.7, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 95, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.45, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.6, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.04, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 4.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.84, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 54903478, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006517, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.277867, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 39647624, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.95064, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.966807, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.040335, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.033193, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 37690621, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 18870104, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 1599203, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 647867, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 51.495811, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 15, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.379842, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.138862, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.97494, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 95, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 123.243581, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.27969, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 9.999999999999999e-05, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.8168, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.77801288338443, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 95.17, "STAR_mqc-generalstats-star-uniquely_mapped": 26126836, "fastp_mqc-generalstats-fastp-pct_duplication": 11.6806, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.973991, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 5361892828, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 54903478, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.530127, "fastp_mqc-generalstats-fastp-pct_surviving": 98.51721072774055, "fastp_mqc-generalstats-fastp-pct_adapter": 90.43449510364592, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RPC_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 99.7, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.26510808659516, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 26975481, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 60.565453458973735, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 51, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 27864917, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RPC_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 56.96286033079702, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 27864917, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RPC_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 60.47503050280337, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 100.08397599146633, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 27451739, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 60.47503050280337, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 52, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 100.08397599146633, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 27451739 }, { "Sample": "1173_RPC_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 57.64891230039942, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 100.44656628128368, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 27451739, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 57.64891230039942, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 100.44656628128368, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 27451739 }, { "Sample": "1173_RPC_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 183787634, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 102.4, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 97, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.38, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.62, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.94, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.88, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 559664924, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007063, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.630328, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 206892507, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.932359, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.96045, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.048535, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.03955, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 192898054, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 96486050, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 10041529, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3973160, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 268.780762, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 108, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.654241, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.512781, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.97521, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 99, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 130.948582, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.634812, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.8962, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.96070800563052, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 95.02, "STAR_mqc-generalstats-star-uniquely_mapped": 265895484, "fastp_mqc-generalstats-fastp-pct_duplication": 28.5385, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.974169, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 56211904345, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 559664924, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.536805, "fastp_mqc-generalstats-fastp-pct_surviving": 98.30109879799852, "fastp_mqc-generalstats-fastp-pct_adapter": 88.88322450706225, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RPC_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 102.4, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.47201573061241, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 275556666, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.65627550369676, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 51, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 284668702, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RPC_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 81.71800563939776, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 284668702, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RPC_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.66066147165623, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 102.90950021373861, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 279832462, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.66066147165623, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 102.90950021373861, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 279832462 }, { "Sample": "1173_RPC_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.04818948487595, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 103.28681176381887, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 279832462, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.04818948487595, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 103.28681176381887, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 279832462 }, { "Sample": "1173_RPX_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 369972839, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 111.2, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 106, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.13, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.5, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.04, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.31, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.77, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 589678722, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.00706, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.514996, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 285996753, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.941262, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.965744, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.044181, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.034256, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 269197911, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 134868330, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 12635741, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4783882, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 414.421193, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 177, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.712452, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.589223, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973001, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 111, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 156.362806, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.518657, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.5704, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 84.98349922589537, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.35, "STAR_mqc-generalstats-star-uniquely_mapped": 278166240, "fastp_mqc-generalstats-fastp-pct_duplication": 25.6756, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971856, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 63788408549, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 589678722, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.554347, "fastp_mqc-generalstats-fastp-pct_surviving": 98.279787, "fastp_mqc-generalstats-fastp-pct_adapter": 82.59509266666667, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RPX_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 111.2, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.40890782557354, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 290148195, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.14071359912604, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 359293847, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RPX_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.18606327374559, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 359293847, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RPX_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.02898063682862, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 111.14167787115778, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294839361, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.02898063682862, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 111.14167787115778, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294839361 }, { "Sample": "1173_RPX_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.33508253065503, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 111.46385016415769, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294839361, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.33508253065503, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 111.46385016415769, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294839361 }, { "Sample": "1173_RQT_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 129033287, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 101.5, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 97, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.94, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.56, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.89, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.88, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 535352092, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008481, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.724784, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 147337300, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.894218, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.9342, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.074965, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.0658, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 131751725, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 65723092, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 11045198, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4629182, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 173.598498, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 65, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.616299, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.414431, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973189, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 102, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 136.090386, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.730984, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 96.68369999999999, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 83.44362604641486, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.01, "STAR_mqc-generalstats-star-uniquely_mapped": 251644700, "fastp_mqc-generalstats-fastp-pct_duplication": 34.1105, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971776, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 53711852394, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 535352092, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.58522, "fastp_mqc-generalstats-fastp-pct_surviving": 97.47758777148321, "fastp_mqc-generalstats-fastp-pct_adapter": 88.27125897037479, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RQT_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 101.5, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.79025202725835, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 261761080, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.7563089478777, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 274602657, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RQT_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.81952826748937, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 274602657, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RQT_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.82875723362807, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 102.98933543347394, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 267676046, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 85.82875723362807, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 102.98933543347394, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 267676046 }, { "Sample": "1173_RQT_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.86090309329116, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 103.49249837245429, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 102, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 267676046, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 85.86090309329116, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 103.49249837245429, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 102, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 267676046 }, { "Sample": "1173_RQT_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 77981001, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 106, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 101, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.87, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.54, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.69, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.86, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 381193030, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008763, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.767916, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 88468794, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.882602, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.929181, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.079639, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.070819, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 78082724, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 38975830, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 7045580, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 2970596, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 106.406468, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 37, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.539895, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.288097, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.971577, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 108, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 147.488993, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.774705, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 96.6899, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 83.66424795448577, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.09, "STAR_mqc-generalstats-star-uniquely_mapped": 179341276, "fastp_mqc-generalstats-fastp-pct_duplication": 40.1216, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.970117, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 39658577874, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 381193030, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.583598, "fastp_mqc-generalstats-fastp-pct_surviving": 97.74440908167807, "fastp_mqc-generalstats-fastp-pct_adapter": 86.30830129829104, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RQT_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 106, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.77577255281923, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 186357215, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.61555916578578, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 194994800, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RQT_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.50621356464482, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 194994800, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_RQT_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.69602926284443, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 107.02255587936642, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 190596515, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 86.69602926284443, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 107.02255587936642, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 190596515 }, { "Sample": "1173_RQT_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.2974618358316, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 107.45639137735546, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 190596515, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 86.2974618358316, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 107.45639137735546, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 190596515 }, { "Sample": "1173_S9Q_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 238579475, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 114.1, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 109, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.68, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.38, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.13, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.6, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 589432784, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008542, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.581097, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 246915028, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.930267, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.960724, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.049342, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.039276, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 229696917, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 115111961, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 12183363, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4705969, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 354.682977, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 156, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.734807, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.583144, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.972709, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 114, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 153.663498, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.586104, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.24159999999999, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 84.43327047294588, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.14, "STAR_mqc-generalstats-star-uniquely_mapped": 277435138, "fastp_mqc-generalstats-fastp-pct_duplication": 35.3908, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971405, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 64797224108, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 589432784, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.578284, "fastp_mqc-generalstats-fastp-pct_surviving": 98.23879733333334, "fastp_mqc-generalstats-fastp-pct_adapter": 81.08410216666667, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_S9Q_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 114.1, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.13539383991916, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 289221092, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.8670464102716, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 303932819, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_S9Q_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.7804046703723, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 303932819, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_S9Q_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.86983296066649, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 57, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 113.00195583284692, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294716392, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.86983296066649, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 57, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 113.00195583284692, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294716392 }, { "Sample": "1173_S9Q_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.12247518059898, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 113.32334279187295, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294716392, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.12247518059898, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 113.32334279187295, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294716392 }, { "Sample": "1173_SDP_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 149938835, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 98.8, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 95, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.63, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.38, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.61, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 591418434, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006906, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.689307, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 183749541, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.921201, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.951283, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.05657, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.048717, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 169270249, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 84613447, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 10394759, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4333210, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 225.686877, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 95, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.679312, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.491492, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.97351, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 99, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 129.246376, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.694101, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.7097, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.83781196372365, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 95.23, "STAR_mqc-generalstats-star-uniquely_mapped": 281602627, "fastp_mqc-generalstats-fastp-pct_duplication": 30.359199999999998, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972536, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 58221649658, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 591418434, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.564885, "fastp_mqc-generalstats-fastp-pct_surviving": 98.569739, "fastp_mqc-generalstats-fastp-pct_adapter": 90.99672266666666, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_SDP_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 98.8, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.47711375191935, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 291205902, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.96043194670202, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 363150906, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_SDP_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.29413055634559, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 363150906, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_SDP_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.67780841536374, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 101.03934199318515, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295709217, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 85.67780841536374, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 101.03934199318515, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295709217 }, { "Sample": "1173_SDP_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.04698450848409, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 101.40332955194968, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295709217, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 85.04698450848409, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 101.40332955194968, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295709217 }, { "Sample": "1173_SFA_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 9380287, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 131.7, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 121, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.66, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.24, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.31, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.48, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 69311912, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008631, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.882111, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 8171081, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.792726, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.874279, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.134058, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.125721, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 6477432, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 3228521, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 1095399, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 464260, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 10.27571, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 3, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.079694, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.009836, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.971259, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 127, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 180.13828, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.889791, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 96.7985, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 78.28857997046273, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 92.11, "STAR_mqc-generalstats-star-uniquely_mapped": 31920362, "fastp_mqc-generalstats-fastp-pct_duplication": 60.7131, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.969695, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 8164549669, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 69311912, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.58578, "fastp_mqc-generalstats-fastp-pct_surviving": 97.17306930877407, "fastp_mqc-generalstats-fastp-pct_adapter": 68.34838126133192, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_SFA_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 131.7, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.59608709106163, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 33822857, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 88.6289517359667, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 35664157, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_SFA_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.31019202713472, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 35664157, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_SFA_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 88.66870330720705, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 121.31030951793683, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 127, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 34655956, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 88.66870330720705, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 121.31030951793683, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 127, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 34655956 }, { "Sample": "1173_SFA_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 88.07035105236648, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 58, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 121.6283899944933, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 127, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 34655956, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 88.07035105236648, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 58, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 121.6283899944933, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 127, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 34655956 }, { "Sample": "1173_SK8_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 492615446, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 113.5, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 106, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.11, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.42, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.05, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.15, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.64, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 590162368, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.00776, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.474461, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 310153306, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.939488, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.96485, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.045747, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.03515, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 291385394, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 146158049, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 14188527, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 5324636, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 467.344594, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 239, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.776244, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.652264, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.97267, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 110, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 163.717895, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.478171, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 9.999999999999999e-05, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.2946, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 83.73576307763827, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.32, "STAR_mqc-generalstats-star-uniquely_mapped": 278321931, "fastp_mqc-generalstats-fastp-pct_duplication": 22.633, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.971565, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 63874099942, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 590162368, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.545211, "fastp_mqc-generalstats-fastp-pct_surviving": 98.36039466666666, "fastp_mqc-generalstats-fastp-pct_adapter": 78.81002216666667, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_SK8_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 113.5, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.88525180921059, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 288840960, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.74520987146047, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 372836202, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_SK8_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.54234324912932, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 372836202, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_SK8_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.4152320776517, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 111.23634115213527, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295081184, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 83.4152320776517, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 111.23634115213527, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295081184 }, { "Sample": "1173_SK8_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 82.33753476697864, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 111.55290025540903, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 112, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295081184, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 82.33753476697864, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 111.55290025540903, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 112, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295081184 }, { "Sample": "1173_SK8_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 410428532, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 123.5, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 116, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.02, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.41, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.03, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.99, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.62, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 408413764, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.008451, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.407732, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 241890484, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.944177, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.970268, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.041554, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.029732, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 228387373, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 114649757, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 10051521, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3513201, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 390.565057, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 198, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.760043, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.625115, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973441, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 125, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 203.813231, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.411207, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.3464, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 86.09967567211048, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.46, "STAR_mqc-generalstats-star-uniquely_mapped": 192899375, "fastp_mqc-generalstats-fastp-pct_duplication": 22.6579, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972183, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 47239473922, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 408413764, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.551439, "fastp_mqc-generalstats-fastp-pct_surviving": 98.08237173741331, "fastp_mqc-generalstats-fastp-pct_adapter": 72.30255502403725, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_SK8_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 123.5, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.0742798864144, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 200274429, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.83333027157741, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 208199372, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_SK8_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 78.79406556106031, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 208199372, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_SK8_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.87480611430361, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 118.82547928526718, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 122, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 204206882, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 80.87480611430361, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 118.82547928526718, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 122, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 204206882 }, { "Sample": "1173_SK8_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 80.27817159330624, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 119.11408354004445, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 122, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 204206882, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 80.27817159330624, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 119.11408354004445, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 122, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 204206882 }, { "Sample": "1173_T46_T1_RNA_SLD_01_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 141616493, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 108.6, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 104, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.98, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.29, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 3.06, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.48, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 590624724, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007689, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.763422, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 139728825, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.899974, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.942174, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.067525, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.057826, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 125752249, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 62901851, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 9435206, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3860639, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 176.14429, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 53, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.591346, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.379272, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.970654, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 109, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 153.85876, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.769337, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.41300000000001, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 82.70431208366016, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.15, "STAR_mqc-generalstats-star-uniquely_mapped": 278041637, "fastp_mqc-generalstats-fastp-pct_duplication": 39.1673, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.969341, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 62566346574, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 590624724, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.560216, "fastp_mqc-generalstats-fastp-pct_surviving": 98.437454, "fastp_mqc-generalstats-fastp-pct_adapter": 84.08637983333334, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_T46_T1_RNA_SLD_01_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 108.6, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.99958458901223, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 289404888, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.92625001094211, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 314730154, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_T46_T1_RNA_SLD_01_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 83.36347191635902, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 314730154, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_T46_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.73144508353084, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 109.11366935597502, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295312362, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 85.73144508353084, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 109.11366935597502, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295312362 }, { "Sample": "1173_T46_T1_RNA_SLD_01_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.16881333430092, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 109.44422157308809, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 295312362, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.16881333430092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 109.44422157308809, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 295312362 }, { "Sample": "1173_T46_T1_RNA_SLD_01_A23T55JLT4_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 96735325, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 106.8, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 101, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0.93, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.29, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 2.98, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0.49, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 544744504, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.00803, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.782758, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 118341229, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.898965, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.946541, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.064069, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.053459, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 106384653, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 53121844, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 7582049, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3000221, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 148.845732, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 46, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.573001, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.345819, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.973957, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 108, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 155.982572, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.789095, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.4893, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 84.4962910569478, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.32, "STAR_mqc-generalstats-star-uniquely_mapped": 256890509, "fastp_mqc-generalstats-fastp-pct_duplication": 48.1955, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.972496, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 57140025495, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 544744504, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.563416, "fastp_mqc-generalstats-fastp-pct_surviving": 97.90985099686804, "fastp_mqc-generalstats-fastp-pct_adapter": 84.89440978807151, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_T46_T1_RNA_SLD_01_A23T55JLT4_2_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 106.8, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.33043859401654, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 267824830, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.59137065231769, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 278186770, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_T46_T1_RNA_SLD_01_A23T55JLT4_2_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.7428747856205, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 27.27272727272727, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 278186770, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "1173_T46_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.67055268640955, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 55, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 107.64714420689226, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 272372252, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 87.67055268640955, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 55, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 107.64714420689226, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 272372252 }, { "Sample": "1173_T46_T1_RNA_SLD_01_A23T55JLT4_2_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.46350334350677, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 56, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 108.06575869923783, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 107, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 272372252, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 86.46350334350677, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 56, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 108.06575869923783, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 107, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 18.181818181818183, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 272372252 }, { "Sample": "FFPE_HD789_01_RNA_13_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 531926337, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Yes", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 62.05, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 175.8, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 158, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.71, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0.76, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 4.92, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 1.09, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 588609644, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.006159, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.409671, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 347473501, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.945788, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.978525, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.043778, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.021475, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 328636355, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 166504100, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 15211665, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 3654097, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 729.006164, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 298, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.719071, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.623105, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.972208, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 315, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 932.459799, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.41221, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 97.6481, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 90.20313567252451, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 95.92, "STAR_mqc-generalstats-star-uniquely_mapped": 282298648, "fastp_mqc-generalstats-fastp-pct_duplication": 29.828, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.97106, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 78182985721, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 588609644, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.540505, "fastp_mqc-generalstats-fastp-pct_surviving": 98.10160733333333, "fastp_mqc-generalstats-fastp-pct_adapter": 38.952271833333334, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "FFPE_HD789_01_RNA_13_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 175.8, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 98.26255955806256, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 289191451, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 88.49699416892697, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 604274477, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "FFPE_HD789_01_RNA_13_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.01488303579723, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 604274477, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "FFPE_HD789_01_RNA_13_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.31600520130864, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 136.72146928669758, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294304822, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.31600520130864, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 136.72146928669758, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 151, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294304822 }, { "Sample": "FFPE_HD789_01_RNA_13_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 84.71005376531532, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 136.83895564918743, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 294304822, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 84.71005376531532, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 136.83895564918743, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 151, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 294304822 }, { "Sample": "FFPE_V4_0002_RNA_0001_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 287762206, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "No", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 160.2, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 146, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 1.8, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 1.18, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0.01, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 4.9, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 1.62, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 587997246, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.007311, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.523322, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 280285138, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.93254, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.97021, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.052124, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.02979, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 261377061, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 132423352, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 14609510, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 4066066, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 541.37458, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 135, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0.598416, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0.522244, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.972045, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 224, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 590.260262, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.527176, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 96.82809999999999, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 89.49011085657628, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 95.57, "STAR_mqc-generalstats-star-uniquely_mapped": 280985506, "fastp_mqc-generalstats-fastp-pct_duplication": 37.4396, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.970728, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 76255116299, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 587997246, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.541744, "fastp_mqc-generalstats-fastp-pct_surviving": 97.99954100000001, "fastp_mqc-generalstats-fastp-pct_adapter": 45.674301166666666, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "FFPE_V4_0002_RNA_0001_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 160.2, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 97.4073735712701, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 286376337, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 87.22800603942095, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 356161534, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "FFPE_V4_0002_RNA_0001_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 85.8287635396233, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 356161534, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "FFPE_V4_0002_RNA_0001_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.17811263991582, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 133.50968812530797, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 293998623, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 86.17811263991582, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 133.50968812530797, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 151, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 293998623 }, { "Sample": "FFPE_V4_0002_RNA_0001_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 86.43001074446106, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 54, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 133.67339847370647, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 293998623, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 86.43001074446106, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 54, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 133.67339847370647, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 151, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 293998623 }, { "Sample": "NTC_0001_0001_A23T55JLT4_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 2116, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": "Skipped", "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": "N/A", "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 91.5, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 100, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 0, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": 1444, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": 0.443213, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": 0.218144, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": 1129, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": 0.080602, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": 0.2, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": 0.352524, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": 0.8, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": 91, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": 47, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": 398, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": 188, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": 0.000138, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": 0, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": 0.93599, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": 0, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 33, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 51.109195, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.391791, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0.2997, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 45.311800000000005, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 4.687230742719283, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 17.73, "STAR_mqc-generalstats-star-uniquely_mapped": 128, "fastp_mqc-generalstats-fastp-pct_duplication": 29.4408, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.889823, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 119974, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 1444, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.684571, "fastp_mqc-generalstats-fastp-pct_surviving": 4.137061654824662, "fastp_mqc-generalstats-fastp-pct_adapter": 50.77641531056612, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "NTC_0001_0001_A23T55JLT4_1_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 91.5455, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 19.390581717451525, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 140, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 94.80288792115516, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 73, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 54.54545454545454, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 17452, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "NTC_0001_0001_A23T55JLT4_1_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 95.19825807930323, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 98, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 151, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 54.54545454545454, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 17452, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "NTC_0001_0001_A23T55JLT4_1_trimmed_1", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 32.13296398891967, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 64, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 92.07617728531856, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 92, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 45.45454545454545, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 722, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 32.13296398891967, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 64, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 92.07617728531856, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 92, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 45.45454545454545, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 722 }, { "Sample": "NTC_0001_0001_A23T55JLT4_1_trimmed_2", "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_unmapped": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_dupes": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-unique_reads": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_on_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-reads_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-pairs_off_target": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-mean_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-q50_depth": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt30x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-frac_bases_gt100x": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-n_q30": null, "Custom content: SeqTools (general stats)_mqc-generalstats-custom_content_seqtools_general_stats-gc_bias": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 39.88919667590027, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 71, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 94.75346260387812, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 97, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 45.45454545454545, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 722, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 39.88919667590027, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 71, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 94.75346260387812, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 97, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 45.45454545454545, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 722 } ] }