Workflow: mutect parallel workflow

Fetched 2023-01-04 02:25:56 GMT
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Workflow as SVG
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  • Nested Workflows
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  • Inputs/Outputs

Inputs

ID Type Title Doc
dbsnp_vcf File (Optional)
reference File
tumor_bam File
cosmic_vcf File (Optional)
normal_bam File (Optional)
interval_list File
scatter_count Integer
artifact_detection_mode Boolean (Optional)

Steps

ID Runs Label Doc
index
../detect_variants/index.cwl (CommandLineTool)
vcf index
merge
../detect_variants/merge.cwl (CommandLineTool)
vcf merge
mutect
mutect.cwl (CommandLineTool)
mutect2 (GATK 3.6)
split_interval_list
../detect_variants/split_interval_list.cwl (CommandLineTool)

Outputs

ID Type Label Doc
merged_vcf File
Permalink: https://w3id.org/cwl/view/git/8c5ae3dbabfe73e0a577b91b25ef5b0b32f388cb/mutect/workflow.cwl