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

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

Filters VCF files

variant calling filtering VCF

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @joseespinosa @drpatelh

Maintainers: @joseespinosa @drpatelh

Filters VCF files

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

include { BCFTOOLS_FILTER } from 'nf-core/bcftools/filter'

MIT License

Process

`Name`	`BCFTOOLS_FILTER`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`vcf` file	VCF input file `*.{vcf,bcf,vcf.gz,bcf.gz}`
`tbi` file	VCF index file `*.tbi`

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 ]
`*.${extension}` file	VCF filtered output file `*.{vcf,bcf,vcf.gz,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
filter	Apply fixed-threshold filters to VCF files.	http://samtools.github.io/bcftools/bcftools.html

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:25:09 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fbcftools%2Ffilter/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/bcftools/filter/blobs/sha256:b23ffb14910611f31ab7c4f40811a7d9cb68da49c647ee11f1f134c6c1942450
Size	3.8 KB
Checksum	sha256:b23ffb14910611f31ab7c4f40811a7d9cb68da49c647ee11f1f134c6c1942450
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:25:09 (UTC)		1	3.8 KB	-