Nextflow Registry | nf-core/bcftools/pluginsplit@0.0.0-6c4ed3a

nf-core/bcftools/pluginsplit @ 0.0.0-6c4ed3a

Split VCF by sample, creating single- or multi-sample VCFs.

split vcf genomics

Latest version: 0.0.0-6c4ed3a

Total downloads: 7

Source: nf-core/modules

Authors: @nvnieuwk

Maintainers: @nvnieuwk

Split VCF by sample, creating single- or multi-sample VCFs.

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

include { BCFTOOLS_PLUGINSPLIT } from 'nf-core/bcftools/pluginsplit'

MIT License

Process

`Name`	`BCFTOOLS_PLUGINSPLIT`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`vcf` file	The VCF file to split `*.{vcf,vcf.gz,bcf,bcf.gz}`
`tbi` file	OPTIONAL - The index of the input VCF/BCF `*.tbi`
`samples` file	A tab-separated file determining which samples should be in which output file column 1: The sample name(s) in the input file column 2: The sample name(s) to use in the output file (use `-` to keep the original name) column 3: The name of the output file Either this or a groups file should be given `*`
`groups` file	A tab-separated file determining which samples should be in which output file(s) column 1: The sample name(s) in the input file column 2: The sample name(s) to use in the output file (use `-` to keep the original name) column 3: The name of the output file(s) Either this or a samples file should be given `*`
`regions` file	A BED file containing regions to use `*.bed`
`targets` file	A BED file containing regions to use (but streams rather than index-jumps) `*.bed`

Output 4 channels

#1 csi tuple

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

#2 tbi tuple

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

#3 vcf tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.{vcf,vcf.gz,bcf,bcf.gz}` file	The resulting VCF files from the split `*.{vcf,vcf.gz,bcf,bcf.gz}`

#4 versions_bcftools tuple

`${task.process}` string	The process the versions were collected from
`bcftools` string	The tool name
`bcftools --version \| sed '1!d; s/^.*bcftools //'` string	The command used to generate the version of the tool

Tool	Description	Homepage
pluginsplit	Split VCF by sample, creating single- or multi-sample VCFs.	http://samtools.github.io/bcftools/bcftools.html

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:05:10 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fbcftools%2Fpluginsplit/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/bcftools/pluginsplit/blobs/sha256:3d233a6b958b44255da667231c94553ee743ee51ef2c3cb2c1f2439fb399e14b
Size	3.9 KB
Checksum	sha256:3d233a6b958b44255da667231c94553ee743ee51ef2c3cb2c1f2439fb399e14b
Downloads	3

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:05:10 (UTC)		3	3.9 KB
0.0.0-0c7146d	08 Apr 2026 18:46:14 (UTC)		4	3.9 KB