Work Directory

Task
NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:SEQTOOL_QC (A549_FFPE_01_RNA_0001_B23LG7FLT4_1)
Attempt
1
S3 Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5d/a23f8eb676d3c5a2ac8d553b1b202c

Files (70)

Name Size Modified
.command.begin 6 bytes Jun 08, 2026 12:25 AM
.command.err 1.6 KB Jun 08, 2026 12:26 AM
.command.log 7.1 KB Jun 08, 2026 12:26 AM
.command.out 4.1 KB Jun 08, 2026 12:26 AM
.command.run 15.0 KB Jun 08, 2026 12:25 AM
.command.sh 977 bytes Jun 08, 2026 12:25 AM
.command.trace 278 bytes Jun 08, 2026 12:26 AM
.command.yaml 3.8 KB Jun 08, 2026 12:25 AM
.exitcode 1 byte Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md.bai 2.7 MB Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md.bam 113.9 MB Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md.mpileup 2.0 KB Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md.depth.gz 64.8 MB Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md.depth.gz.tbi 559.4 KB Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md.depth.png 20.9 KB Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md.depth_hist.tsv 9.1 KB Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/contamination.tsv 154 bytes Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/depth_stats.Twist_rna_exome_AND_fusion_hg38.bed.tsv 433 bytes Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/fragsize.fragsize.png 25.3 KB Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/fragsize.fragsize.table 310 bytes Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/full_bed.bed 4.6 MB Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/gc_bias.Twist_rna_exome_AND_fusion_hg38.bed.png 49.1 KB Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/gc_bias_qc.Twist_rna_exome_AND_fusion_hg38.bed.tsv 553 bytes Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/qc_complete.txt 28 bytes Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/read_qc.Twist_rna_exome_AND_fusion_hg38.bed.tsv 587 bytes Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/reads_per_target.Twist_rna_exome_AND_fusion_hg38.bed.tsv 5.0 MB Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/saturation_plot.png 48.6 KB Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/saturation_qc.tsv 78 bytes Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.md/total_base_counts.Twist_rna_exome_AND_fusion_hg38.bed.tsv 66 bytes Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1_basic_stats.tsv 1.3 KB Jun 08, 2026 12:26 AM
A549_FFPE_01_RNA_0001_B23LG7FLT4_1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1_full_basic_stats.tsv 1.3 KB Jun 08, 2026 12:26 AM
Homo_sapiens_assembly38.dbsnp138.vcf.gz 1.4 GB Jun 08, 2026 12:26 AM
Homo_sapiens_assembly38.dbsnp138.vcf.gz.tbi 2.2 MB Jun 08, 2026 12:26 AM
Twist_rna_exome_AND_fusion_hg38.bed 4.6 MB Jun 08, 2026 12:26 AM
dbsnp_hg38_contam_sites.bed 607.2 KB Jun 08, 2026 12:26 AM
nextflow-bin/bclconvert_to_sample_type_map.py 4.4 KB Jun 08, 2026 12:26 AM
nextflow-bin/cancer_introns_to_vcf.py 9.4 KB Jun 08, 2026 12:26 AM
nextflow-bin/contamination_to_multiqc.py 3.5 KB Jun 08, 2026 12:26 AM
nextflow-bin/demux_by_sample.py 4.8 KB Jun 08, 2026 12:26 AM
nextflow-bin/expression_qc_and_signatures.py 8.1 KB Jun 08, 2026 12:26 AM
nextflow-bin/extract_vaf_features.py 5.4 KB Jun 08, 2026 12:26 AM
nextflow-bin/filter_arriba_main.py 9.7 KB Jun 08, 2026 12:26 AM
nextflow-bin/filter_starfusion_main.py 19.7 KB Jun 08, 2026 12:26 AM
nextflow-bin/flowcell_qc.py 11.5 KB Jun 08, 2026 12:26 AM
nextflow-bin/get_rrna_transcripts.py 2.4 KB Jun 08, 2026 12:26 AM
nextflow-bin/gtf2bed 4.0 KB Jun 08, 2026 12:26 AM
nextflow-bin/kallisto_to_multiqc.py 12.1 KB Jun 08, 2026 12:26 AM
nextflow-bin/lib/__init__.py 375 bytes Jun 08, 2026 12:26 AM
nextflow-bin/lib/aih_curated_blacklist.py 4.7 KB Jun 08, 2026 12:26 AM
nextflow-bin/lib/filter_arriba_from_config.py 17.0 KB Jun 08, 2026 12:26 AM
nextflow-bin/lib/filter_starfusions_from_config.py 19.8 KB Jun 08, 2026 12:26 AM
nextflow-bin/lib/flag_starfusions_blacklist.py 19.5 KB Jun 08, 2026 12:26 AM
nextflow-bin/migrate_containers_to_ecr.sh 11.2 KB Jun 08, 2026 12:26 AM
nextflow-bin/multiqc_column_order.py 6.7 KB Jun 08, 2026 12:26 AM
nextflow-bin/multiqc_general_stats_controls.py 2.7 KB Jun 08, 2026 12:26 AM
nextflow-bin/multiqc_general_stats_to_tsv.py 6.6 KB Jun 08, 2026 12:26 AM
nextflow-bin/multiqc_general_stats_txt_to_json.py 3.2 KB Jun 08, 2026 12:26 AM
nextflow-bin/predict_contamination.py 5.3 KB Jun 08, 2026 12:26 AM
nextflow-bin/preseq_to_multiqc.py 8.8 KB Jun 08, 2026 12:26 AM
nextflow-bin/rseqc_to_multiqc.py 3.7 KB Jun 08, 2026 12:26 AM
nextflow-bin/run_level_intermediate.py 12.6 KB Jun 08, 2026 12:26 AM
nextflow-bin/run_level_metrics.py 6.2 KB Jun 08, 2026 12:26 AM
nextflow-bin/run_ngscheckmate.sh 2.1 KB Jun 08, 2026 12:26 AM
nextflow-bin/seqtool_to_multiqc.py 17.6 KB Jun 08, 2026 12:26 AM
nextflow-bin/sort_fusion_vcf_mateid.py 10.6 KB Jun 08, 2026 12:26 AM
nextflow-bin/starfusion_filter_summary.txt 1.1 KB Jun 08, 2026 12:26 AM
nextflow-bin/vcf_collect.py 29.7 KB Jun 08, 2026 12:26 AM
ref_genome.dict 38.0 KB Jun 08, 2026 12:26 AM
ref_genome.fa 2.9 GB Jun 08, 2026 12:26 AM
ref_genome.fa.fai 6.3 KB Jun 08, 2026 12:26 AM