Workflow: haplotypecaller.cwl

Fetched 2020-07-14 15:13:07 GMT
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Inputs

ID Type Title Doc
reference File
job_uuid String
snp_ref File
bam_file File
interval File
sample_name String (Optional)

Steps

ID Runs Label Doc
gatk3_haplotypecaller
../../tools/variant_calling/gatk3_haplotypercaller.cwl (CommandLineTool)
picard_sortvcf
../../tools/variant_calling/picard_sortvcf.cwl (CommandLineTool)

Outputs

ID Type Label Doc
time_metrics_from_gatk3_haplotypecaller File
time_metrics_from_picard_sortvcf File
haplotypecaller_sorted_vcf File
Permalink: https://w3id.org/cwl/view/git/f55f0011de7db66f873ffb0f700f3fe26b33911e/genomel/cwl/workflows/variant_calling/haplotypecaller.cwl