Filters VCF files
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
vcf{:bash}
:file
VCF input file
*.{vcf,bcf,vcf.gz,bcf.gz}
tbi{:bash}
VCF index file
*.tbi
*.${extension}{:bash}
VCF filtered output file
*.tbi{:bash}
Alternative VCF file index
csi{:bash}
*.csi{:bash}
Default VCF file index
*.csi
versions_bcftools{:bash}
${task.process}{:bash}
:string
The process the versions were collected from
bcftools{:bash}
The tool name
bcftools --version | sed '1!d; s/^.*bcftools //'{:bash}
The command used to generate the version of the tool
versions{:bash}
Apply fixed-threshold filters to VCF files.
