Workflow: umi per-lane alignment subworkflow

Fetched 2020-06-03 12:50:24 GMT
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Inputs

ID Type Title Doc
reference String
read_structure String[]
bam File

Steps

ID Runs Label Doc
mark_illumina_adapters
../tools/mark_illumina_adapters.cwl (CommandLineTool)
fastq to bam
extract_umis
../tools/extract_umis.cwl (CommandLineTool)
extract umis from bam
align
../tools/umi_align.cwl (CommandLineTool)
umi alignment

Outputs

ID Type Label Doc
aligned_bam File
adapter_metrics File
Permalink: https://w3id.org/cwl/view/git/eb0092603bf57acb7bda08a06e4f2f1e2a8c9b6d/definitions/subworkflows/umi_alignment.cwl