Nextflow Registry | nf-core/bcftools/concat@0.0.0-0c7146d

nf-core/bcftools/concat @ 0.0.0-0c7146d

Concatenate VCF files

variant calling concat bcftools VCF

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @abhi18av @nvnieuwk

Maintainers: @abhi18av @nvnieuwk

Concatenate VCF files

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

include { BCFTOOLS_CONCAT } from 'nf-core/bcftools/concat'

MIT License

Process

`Name`	`BCFTOOLS_CONCAT`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`vcfs` list	List containing 2 or more vcf files e.g. [ 'file1.vcf', 'file2.vcf' ]
`tbi` list	List containing 2 or more index files (optional) e.g. [ 'file1.tbi', 'file2.tbi' ]

Output 4 channels

#1 csi tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${prefix}.${extension}.csi` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ] `*.csi`

#2 tbi tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${prefix}.${extension}.tbi` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ] `*.tbi`

#3 vcf tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${prefix}.${extension}` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ] `*.{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
concat	Concatenate VCF files.	http://samtools.github.io/bcftools/bcftools.html

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:25:01 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fbcftools%2Fconcat/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/bcftools/concat/blobs/sha256:85453c9c424533e34f4354a7fb2731ca4b8e1c351c946f70beda26f6bc264450
Size	3.8 KB
Checksum	sha256:85453c9c424533e34f4354a7fb2731ca4b8e1c351c946f70beda26f6bc264450
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:25:01 (UTC)		1	3.8 KB	-