Workflow: realign-distr.cwl

Fetched 2022-08-09 18:50:35 GMT
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Inputs

ID Type Title Doc
shard String[]
threads Integer (Optional)
input_bam File[]
reference File
known_sites File[] (Optional)
output_file String
interval_list File (Optional)
advanced_options String[] (Optional)

Steps

ID Runs Label Doc
merge
../algo/bam-merge.cwl (CommandLineTool)

merge sorted bam files. If input bam files are in the order of coordinate, and no overlap, mergemode 10 can be used

realign
../algo/realign.cwl (CommandLineTool)

Outputs

ID Type Label Doc
output File
Permalink: https://w3id.org/cwl/view/git/d20382adfe7285cb517a25d95d2bcb7586546e23/stage/realign-distr.cwl