Description

Converts VCFs containing structural variants to BED format

Input

name:type
description
pattern

meta:map

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

]

vcf:file

A VCF file created with a structural variant caller

*.vcf.gz

tbi:file

The index for the VCF file

*.vcf.gz.tbi

Output

name:type
description
pattern

bed

meta:map

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

]

*.bed:file

The created BED file

*.bed

versions

versions.yml:file

File containing software versions

versions.yml

Tools

svtk
MIT

Utilities for consolidating, filtering, resolving, and annotating structural variants.