Workflow: snp_callers_workflow.cwl

Fetched 2020-06-03 13:58:25 GMT

A workflow for running MuSe, MuTect, SomaticSniper, and Pindel. See [the github repository](https://github.com/BD2KGenomics/dockstore_workflow_snps) for details.

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Workflow as SVG
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Inputs

ID Type Title Doc
GENO_FA File
NORMAL_BAM File
CPUS Integer
MODE String
TUMOR_BAM File
CENTROMERE_BED File
COSMIC_VCF File
DBSNP_VCF File

Steps

ID Runs Label Doc
muse_filter
muse_filter.cwl (CommandLineTool)
Filter MuSE
tar
tar.cwl (CommandLineTool)
somaticsniper
somatic_sniper.cwl (CommandLineTool)
SomaticSniper
muse
muse.cwl (CommandLineTool)
MuSE
mutect
mutect.cwl (CommandLineTool)
MuTect
pindel
pindel.cwl (CommandLineTool)
Pindel-Somatic

Outputs

ID Type Label Doc
OUTPUT File
Permalink: https://w3id.org/cwl/view/git/8c8217b63d16c13924a00408e2b621d888b0aaa5/snp_callers_workflow.cwl