{ "source_file": "multiqc_general_stats.txt", "total_samples": 5, "metrics": [ "Sample", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-reads", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_unmapped", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-unique_reads", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_dupes", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_reads_on_target", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_reads_off_target", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-n_q30", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-mean_depth", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-q50_depth", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_bases_gt30x", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_bases_gt100x", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-gc_bias", "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: 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", "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": "rna_s1221_S42", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-reads": 198648, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_unmapped": 0.004047, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-unique_reads": 197698, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_dupes": 0.004782, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_reads_on_target": 0.929013, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_reads_off_target": 0.06692, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-n_q30": 0.985339, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-mean_depth": 0.40779, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-q50_depth": 0, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_bases_gt30x": 0.000548, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_bases_gt100x": 1.4e-05, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-gc_bias": 0, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": 175.7, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": 160, "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": 4.63, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": 2.77, "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": 9.92, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": 2.85, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": 0, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": 9999000000, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": 27648701, "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": 100, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": 257, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": 671.422208, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": 0.004802, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": 0.09709999999999999, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": 95.2501, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": 81.8293889882451, "STAR_mqc-generalstats-star-uniquely_mapped_percent": 94.51, "STAR_mqc-generalstats-star-uniquely_mapped": 93870, "fastp_mqc-generalstats-fastp-pct_duplication": 0.296, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": 0.984327, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": 27074202, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": 198648, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": 0.533239, "fastp_mqc-generalstats-fastp-pct_surviving": 99.324, "fastp_mqc-generalstats-fastp-pct_adapter": 36.754999999999995, "Kallisto_mqc-generalstats-kallisto-fragment_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": "rna_s1221_S42_1", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-reads": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_unmapped": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-unique_reads": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_dupes": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_reads_on_target": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_reads_off_target": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-n_q30": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-mean_depth": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-q50_depth": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_bases_gt30x": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_bases_gt100x": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-gc_bias": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": 175.674, "Kallisto_mqc-generalstats-kallisto-percent_aligned": 96.40570254923281, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": 95754, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 7.950999999999993, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 52, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 150, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 150, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 18.181818181818183, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 100000, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "rna_s1221_S42_2", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-reads": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_unmapped": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-unique_reads": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_dupes": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_reads_on_target": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_reads_off_target": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-n_q30": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-mean_depth": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-q50_depth": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_bases_gt30x": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_bases_gt100x": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-gc_bias": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 5.337999999999994, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 150, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 150, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 100000, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": null, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": null }, { "Sample": "rna_s1221_S42_trimmed_1", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-reads": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_unmapped": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-unique_reads": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_dupes": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_reads_on_target": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_reads_off_target": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-n_q30": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-mean_depth": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-q50_depth": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_bases_gt30x": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_bases_gt100x": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-gc_bias": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 7.955781080101488, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 138.44392090531997, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 150, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 9.090909090909092, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 99324, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 7.955781080101488, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 138.44392090531997, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 150, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 9.090909090909092, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 99324 }, { "Sample": "rna_s1221_S42_trimmed_2", "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-reads": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_unmapped": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-unique_reads": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_dupes": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_reads_on_target": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_reads_off_target": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-n_q30": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-mean_depth": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-q50_depth": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_bases_gt30x": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-frac_bases_gt100x": null, "Custom content: SeqTools_mqc-generalstats-custom_content_seqtools-gc_bias": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_mean": null, "Custom content: Kallisto_mqc-generalstats-custom_content_kallisto-fragment_length_median": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_est_counts": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_mito_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_ribo_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_hk_tpm": null, "Custom content: Expression QC_mqc-generalstats-custom_content_expression_qc-pct_male_tpm": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-total_reads": null, "Custom content: Preseq_mqc-generalstats-custom_content_preseq-expected_distinct": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-is_contaminated": null, "Custom content: RNA contamination_mqc-generalstats-custom_content_rna_contamination-contamination_pct": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_median": null, "Picard: InsertSizeMetrics_mqc-generalstats-picard_insertsizemetrics-summed_mean": null, "Picard: Mark Duplicates_mqc-generalstats-picard_mark_duplicates-PERCENT_DUPLICATION": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_RIBOSOMAL_BASES": null, "Picard: RnaSeqMetrics_mqc-generalstats-picard_rnaseqmetrics-PCT_MRNA_BASES": null, "RSeQC_mqc-generalstats-rseqc-proper_pairs_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped_percent": null, "STAR_mqc-generalstats-star-uniquely_mapped": null, "fastp_mqc-generalstats-fastp-pct_duplication": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_rate": null, "fastp_mqc-generalstats-fastp-after_filtering_q30_bases": null, "fastp_mqc-generalstats-fastp-filtering_result_passed_filter_reads": null, "fastp_mqc-generalstats-fastp-after_filtering_gc_content": null, "fastp_mqc-generalstats-fastp-pct_surviving": null, "fastp_mqc-generalstats-fastp-pct_adapter": null, "Kallisto_mqc-generalstats-kallisto-fragment_length": null, "Kallisto_mqc-generalstats-kallisto-percent_aligned": null, "Kallisto_mqc-generalstats-kallisto-pseudoaligned_reads": null, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_duplicates": 5.217268736659818, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_gc": 53, "FastQC (raw)_mqc-generalstats-fastqc_raw-avg_sequence_length": 138.45764367121743, "FastQC (raw)_mqc-generalstats-fastqc_raw-median_sequence_length": 150, "FastQC (raw)_mqc-generalstats-fastqc_raw-percent_fails": 0, "FastQC (raw)_mqc-generalstats-fastqc_raw-total_sequences": 99324, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_duplicates": 5.217268736659818, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_gc": 53, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-avg_sequence_length": 138.45764367121743, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-median_sequence_length": 150, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-percent_fails": 0, "FastQC (trimmed)_mqc-generalstats-fastqc_trimmed-total_sequences": 99324 } ] }