Darwin Bamtofastq

Convert BAM/CRAM files back to FASTQ format with optional read sorting and QC. Steps: Step 1: samtools_view; Step 2: samtools_collate; Step 3: samtools_bam2fq; Step 4: fastqc; Step 5: multiqc. Verticals: genomics, transcriptomics.

Use in DarwinOmics

How to use it

Use this workflow element when the submitted analysis needs a multi-step execution path, imported workflow, Darwinomics wrapper, or workflow-scale comparison rather than a single module.