Workflow: dedup-3-pass.cwl

Fetched 2021-10-27 04:23:45 GMT

run 3-pass dedup: algo LocusCollector + algo Dedup output_dup_read_name + algo Dedup dedup_by_read_name sequentially

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Inputs

ID Type Title Doc
reference File (Optional)
traverse_param String (Optional)
metrics_output_file String
threads Integer (Optional)
input_bam File[]
interval File (Optional)
output_file String
advanced_options https://w3id.org/cwl/view/git/d20382adfe7285cb517a25d95d2bcb7586546e23/stage/advanced_options6916b6ab-a4f4-4d23-af65-517eb57550c9 (Optional)
bam_compression Integer (Optional)

Steps

ID Runs Label Doc
dup_read_name
../algo/dedup.cwl (CommandLineTool)
dedup_by_read_name
../algo/dedup.cwl (CommandLineTool)
dedup_pre
../algo/dedup_pre.cwl (CommandLineTool)

Outputs

ID Type Label Doc
output File
metrics_output File (Optional)
Permalink: https://w3id.org/cwl/view/git/d20382adfe7285cb517a25d95d2bcb7586546e23/stage/dedup-3-pass.cwl