view function to generate vcfs
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’ ]
pytor_files{:bash}
:file
pytor file containing cnv calls. To merge calls from multiple samples use a list of files.
*.{pytor}
bin_sizes{:bash}
:string
list of binsizes separated by space e.g. “1000 10000” and “1000”
output_format{:bash}
output format of the cnv calls. Valid entries are “tsv”, “vcf”, and “xls”
vcf{:bash}
*.vcf{:bash}
vcf file containing cnv calls
*.{vcf}
tsv{:bash}
*.tsv{:bash}
tsv file containing cnv calls
*.{tsv}
xls{:bash}
*.xls{:bash}
xls file containing cnv calls
*.{xls}
versions_cnvpytor{:bash}
${task.process}{:bash}
The name of the process
cnvpytor{:bash}
The name of the tool
1.3.2{:bash}
The expression to obtain the version of the tool
versions{:bash}
calling CNVs using read depth
