modules/gvcftools_extractvariants

Removes all non-variant blocks from a gVCF file to produce a smaller variant-only VCF file.

gvcftoolsextract_variantsextractvariantsgvcfvcf

https://github.com/nf-core/modules/[...]/modules/nf-core/gvcftools/extractvariants

Description

Removes all non-variant blocks from a gVCF file to produce a smaller variant-only VCF file.

Input

name:type

description

pattern

`meta:map`

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

]

`gvcf:file`

GVCF file

*.{g.vcf,gvcf}.gz

Output

name:type

description

pattern

`vcf`

`meta:map`

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

]

`*.vcf.gz:file`

Converted variant-only VCF file

*.vcf.gz

`versions`

`versions.yml:file`

File containing software versions

versions.yml

Tools

gvcftools
MIT

gvcftools is a package of small utilities for creating and analyzing gVCF files

sites.google.com/site/gvcftools/home sites.google.com/site/gvcftools/home/configuration-and-analysis https://github.com/sequencing/gvcftools

modules/gvcftools_extractvariants

Description

Input

`meta:map`

`gvcf:file`

Output

`vcf`

`meta:map`

`*.vcf.gz:file`

`versions`

`versions.yml:file`

Tools

gvcftools
MIT

maintainer

get in touch

modules/gvcftools_extractvariants

Description

Input

meta:map

gvcf:file

Output

vcf

meta:map

*.vcf.gz:file

versions

versions.yml:file

Tools

gvcftools MIT

maintainer

get in touch

`meta:map`

`gvcf:file`

`vcf`

`meta:map`

`*.vcf.gz:file`

`versions`

`versions.yml:file`

gvcftools
MIT