Documentation for cnvnator.cwl

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Overview

Run CNVnator to calculate copy number variations in WGS samples

Docker Requirement

mgibio/cnvnator-cwl:0.4

Inputs

Name	Label	Description	Type	Secondary Files
bam		BAM or CRAM input	File
bin_size		Bin size used to calculate coverage	int?
chromosomes		List of chromosomes to run CNVnator on	string[]?
reference		Reference used to generate the alignments	['string', 'File']	['.fai']
sample_name		Sample name used for output file naming	string

Outputs

Name	Label	Description	Type	Secondary Files
vcf			File
root_file			File
cn_file			File