Workflow: umi per-lane alignment subworkflow

Fetched 2019-10-20 17:13:55 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/40097e1ed094c5b42b68f3db2ff2cbe78c182479/definitions/subworkflows/umi_alignment.cwl