modules/vcflib_vcfuniq

List unique genotypes. Like GNU uniq, but for VCF records. Remove records which have the same position, ref, and alt as the previous record.

vcfuniqdeduplicate

https://github.com/nf-core/modules/[...]/modules/nf-core/vcflib/vcfuniq

Description

List unique genotypes. Like GNU uniq, but for VCF records. Remove records which have the same position, ref, and alt as the previous record.

Input

name:type

description

pattern

`meta:map`

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

`vcf:file`

Compressed VCF file

*.vcf.gz

`tbi:file`

Index of VCF file

*.vcf.gz.tbi

Output

name:type

description

pattern

`vcf`

`meta:map`

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

*.vcf.gz

`*.vcf.gz:map`

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

*.vcf.gz

`versions`

`versions.yml:file`

File containing software versions

versions.yml

Tools

vcflib
MIT

Command-line tools for manipulating VCF files

github.com/vcflib/vcflib github.com/vcflib/vcflib#USAGE 10.1101/2021.05.21.445151

modules/vcflib_vcfuniq

Description

Input

meta:map

vcf:file

tbi:file

Output

vcf

meta:map

*.vcf.gz:map

versions

versions.yml:file

Tools

vcflib MIT

`meta:map`

`vcf:file`

`tbi:file`

`vcf`

`meta:map`

`*.vcf.gz:map`

`versions`

`versions.yml:file`

vcflib
MIT