Nextflow Registry | nf-core/plink2/remove@0.0.0-0c7146d

nf-core/plink2/remove @ 0.0.0-0c7146d

Remove samples from a plink2 dataset

plink2 remove samples population genomics

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @RuthEberhardt

Maintainers: @RuthEberhardt

Remove samples from a plink2 dataset

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

include { PLINK2_REMOVE } from 'nf-core/plink2/remove'

MIT License

Process

`Name`	`PLINK2_REMOVE`

Input 2 channels

#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}`

`sample_exclude_list` file	List of samples to exclude

Output 7 channels

#1 versions

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

#2 remove_bed tuple

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

#3 remove_bim tuple

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

#4 remove_fam tuple

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

#5 remove_pgen tuple

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

#6 remove_psam tuple

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

#7 remove_pvar tuple

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

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	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:04:35 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fplink2%2Fremove/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/plink2/remove/blobs/sha256:9fac886cde71f7ae42c8d6afbb4c649bffc4e4135df65071d40d823c2b45a0c5
Size	3.2 KB
Checksum	sha256:9fac886cde71f7ae42c8d6afbb4c649bffc4e4135df65071d40d823c2b45a0c5
Downloads	1