Documentation for collect_wgs_metrics.cwl

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Overview

collect WGS metrics

Docker Requirement

broadinstitute/picard:2.23.6

Inputs

Name	Label	Description	Type	Secondary Files
sample_name			string?
bam			File	['^.bai']
reference			['string', 'File']	['.fai', '^.dict']
intervals			File?
minimum_mapping_quality		Minimum mapping quality for a read to contribute coverage.	int?
minimum_base_quality		Minimum base quality for a base to contribute coverage. (N bases are considered to have negative infinite quality and will be excluded regardless of this value.)	int?

Outputs

Name	Label	Description	Type	Secondary Files
wgs_metrics			File