Nextflow Registry | nf-core/plink2/filter@0.0.0-6c4ed3a

nf-core/plink2/filter @ 0.0.0-6c4ed3a

Filters plink bfiles or pfiles with filters such as maf or var

plink2 filter samples variants missingness qualty

Latest version: 0.0.0-6c4ed3a

Total downloads: 10

Source: nf-core/modules

Authors: @jodennehy

Maintainers: @jodennehy

Filters plink bfiles or pfiles with filters such as maf or var

Add the following snippet to your workflow script to include this module.

include { PLINK2_FILTER } from 'nf-core/plink2/filter'

MIT License

Process

`Name`	`PLINK2_FILTER`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test' ]
`plink_genotype_file` file	PLINK binary genotype table file or PLINK 2 binary genotype table file `*.{bed,pgen}`
`plink_variant_file` file	PLINK extended MAP file or PLINK 2 variant information file `*.{bim,pvar}`
`plink_sample_file` file	PLINK sample information file or PLINK 2 sample information file `*.{fam,psam}`

Output 7 channels

#1 bed tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.bed` file	PLINK binary allelic genotype table `*.bed`

#2 bim tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.bim` file	PLINK extended map file `*.bim`

#3 fam tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.fam` file	PLINK sample information file `*.fam`

#4 pgen tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.pgen` file	PLINK 2 binary genotype table `*.pgen`

#5 psam tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.psam` file	PLINK 2 sample information file `*.psam`

#6 pvar tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.pvar` file	PLINK 2 variant information file `*.pvar`

#7 versions

`versions.yml` file	File containing software versions `versions.yml`

Tool	Description	Homepage
plink2	Whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner	http://www.cog-genomics.org/plink/2.0/

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:37:56 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fplink2%2Ffilter/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/plink2/filter/blobs/sha256:fc221b1499f871946489c670cc5d775c91398d35495cc21b6b332de610660420
Size	3.4 KB
Checksum	sha256:fc221b1499f871946489c670cc5d775c91398d35495cc21b6b332de610660420
Downloads	4

Version	Date	Status	Downloads	Size