Description

A tool to standardize VCF files from structural variant callers

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:'sample1', single_end:false ]

vcf (file)

The input VCF file containing structural variants

*.{vcf,vcf.gz}

tbi (file)

The index of the input VCF file containing structural variants

*.tbi

meta2 (map)

Groovy Map containing config meta information

config (file)

The config stating how the standardization should happen

*.{yml,yaml}

Output

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:'sample1', single_end:false ]

versions (file)

File containing software versions

versions.yml

vcf (file)

The standardized VCF file

*.vcf.gz

Tools

svync
MIT

A tool to standardize VCF files from structural variant callers