bqsr_workflow.cwl - Common Workflow Language Viewer

Workflow: bqsr_workflow.cwl

Fetched 2024-11-28 19:43:09 GMT

Verified with cwltool version 3.1.20230201224320

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This workflow is Open Source and may be reused according to the terms of: MIT License

Note that the tools invoked by the workflow may have separate licenses.

Inputs

ID	Type	Title	Doc
bams	File[]
run_tools	https://w3id.org/cwl/view/git/b0f226a9ac5152f3afe0d38c8cd54aa25b8b01cf/resources/schemas/collapsing_tools.yaml#run_tools
reference_fasta	String
print_reads__params	https://w3id.org/cwl/view/git/b0f226a9ac5152f3afe0d38c8cd54aa25b8b01cf/resources/schemas/params/print_reads.yaml#print_reads__params
bqsr__knownSites_dbSNP	File
bqsr__knownSites_millis	File
base_recalibrator__params	https://w3id.org/cwl/view/git/b0f226a9ac5152f3afe0d38c8cd54aa25b8b01cf/resources/schemas/params/base_recalibrator.yaml#base_recalibrator__params

Steps

ID	Runs	Label	Doc
parallel_bqsr	bqsr_workflow.cwl#parallel_bqsr/57f145f0-6442-43a8-98ba-1d7cb9027944 (Workflow)
parallel_printreads	bqsr_workflow.cwl#parallel_printreads/017787c2-277c-4947-b78d-b12aed00ef2f (Workflow)

Outputs

ID	Type	Label	Doc
bqsr_bams	File[]
recalibrated_scores_matrix	File[]

Permalink: https://w3id.org/cwl/view/git/b0f226a9ac5152f3afe0d38c8cd54aa25b8b01cf/workflows/BQSR/bqsr_workflow.cwl