tools_bam_readcount.cwl

Documentation for bam_readcount.cwl

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Overview

run bam-readcount

Docker Requirement

mgibio/bam_readcount_helper-cwl:1.1.1

Inputs

Name	Label	Description	Type	Secondary Files
vcf			File
sample			string
reference_fasta			['string', 'File']	['.fai', '^.dict']
bam			File	['.bai']
prefix			string?
min_base_quality			int?
min_mapping_quality			int?

Outputs

Name	Label	Description	Type	Secondary Files
snv_bam_readcount_tsv			File
indel_bam_readcount_tsv			File