Workflow: minibam_sub_wf.cwl

Fetched 2019-01-18 08:04:58 GMT

This is a subworkflow of the main oxog_varbam_annotat_wf workflow - this is not meant to be run as a stand-alone workflow!

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Workflow as SVG
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Inputs

ID Type Title Doc
inputFileDirectory Directory
input-snv File
snv-padding String
tumour https://w3id.org/cwl/view/git/e9f3694e31e3c1570183a4f444a44015766f9f2f/TumourType.yaml#TumourType
sv-padding String
input-sv File
indel-padding String
input-indel File

Steps

ID Runs Label Doc
sub_run_var_bam
Variantbam-for-dockstore/variantbam.cwl (CommandLineTool)
VariantBam

This is the VariantBam tool used in the PCAWG project. VariantBam was created by Jeremiah Wala (jwala@broadinstitute.org). This CWL wrapper was created by Solomon Shorser. For more information about VariantBam, see: https://github.com/jwalabroad/VariantBam

Outputs

ID Type Label Doc
minibamIndex File
minibam File
Permalink: https://w3id.org/cwl/view/git/e9f3694e31e3c1570183a4f444a44015766f9f2f/minibam_sub_wf.cwl