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

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

View, subset and filter VCF or BCF files by position and filtering expression. Convert between VCF and BCF

variant calling view bcftools VCF

Latest version: 0.0.0-6c4ed3a

Total downloads: 7

Source: nf-core/modules

Authors: @abhi18av

Maintainers: @abhi18av

View, subset and filter VCF or BCF files by position and filtering expression. Convert between VCF and BCF

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

include { BCFTOOLS_VIEW } from 'nf-core/bcftools/view'

MIT License

Process

`Name`	`BCFTOOLS_VIEW`

Input 4 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`vcf` file	The vcf file to be inspected. e.g. 'file.vcf'
`index` file	The tab index for the VCF file to be inspected. e.g. 'file.tbi'

`regions` file	Optionally, restrict the operation to regions listed in this file. e.g. 'file.vcf'

`targets` file	Optionally, restrict the operation to regions listed in this file (doesn't rely upon index files) e.g. 'file.vcf'

`samples` file	Optional, file of sample names to be included or excluded. e.g. 'file.tsv'

Output 4 channels

#1 csi tuple

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

#2 tbi tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.tbi` file	Alternative VCF file index `*.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	VCF normalized output file `*.{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
view	View, subset and filter VCF or BCF files by position and filtering expression. Convert between VCF and BCF	http://samtools.github.io/bcftools/bcftools.html

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:05:22 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fbcftools%2Fview/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/bcftools/view/blobs/sha256:8b4c17f6b798d23e7b6fc3fcce0f75c3d101b9de27360a7ed12f0ba8908b2fad
Size	3.9 KB
Checksum	sha256:8b4c17f6b798d23e7b6fc3fcce0f75c3d101b9de27360a7ed12f0ba8908b2fad
Downloads	3

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:05:22 (UTC)		3	3.9 KB
0.0.0-0c7146d	08 Apr 2026 18:46:32 (UTC)		4	3.9 KB