Description

Sorts VCF files

Input

name:type
description
pattern

meta

:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

vcf

:file

The VCF/BCF file to be sorted

*.{vcf.gz,vcf,bcf}

Output

name:type
description
pattern

vcf

meta

:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

*.{vcf,vcf.gz,bcf,bcf.gz}

:file

Sorted VCF file

*.{vcf.gz}

tbi

meta

:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

*.tbi

:file

Alternative VCF file index

*.tbi

csi

meta

:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

*.csi

:file

Default VCF file index

*.csi

versions

versions.yml

:file

File containing software versions

versions.yml