Description

Analyses variant calling files using plink

Input

name:type
description
pattern

meta:map

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

vcf:file

Variant calling file (vcf)

*.{vcf}

Output

name:type
description
pattern

bed

meta:map

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

*.bed:file

PLINK binary biallelic genotype table

*.{bed}

bim

meta:map

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

*.bim:file

PLINK extended MAP file

*.{bim}

fam

meta:map

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

*.fam:file

PLINK sample information file

*.{fam}

versions

versions.yml:file

File containing software versions

versions.yml

Tools

plink
GPL

Whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner