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

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

Apply set operations to VCF files

variant calling intersect union complement VCF BCF

Latest version: 0.0.0-6c4ed3a

Total downloads: 6

Source: nf-core/modules

Authors: @joseespinosa @drpatelh

Maintainers: @joseespinosa @drpatelh

Apply set operations to VCF files

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

include { BCFTOOLS_ISEC } from 'nf-core/bcftools/isec'

MIT License

Process

`Name`	`BCFTOOLS_ISEC`

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/bcf files. These must be compressed and have an associated index. e.g. [ 'file1.vcf.gz', 'file2.vcf' ] `*.{vcf,vcf.gz,bcf,bcf.gz}`
`tbis` list	List containing the tbi index files corresponding to the vcf/bcf input files `*.tbi`
`file_list` file	Optional text file containing the list of VCF/BCF files to be processed by bcftools isec, one per line.
`targets_file` file	Optional file containing target regions to restrict the analysis to.
`regions_file` file	Optional file containing regions to restrict the analysis to.

Output 2 channels

#1 results tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${prefix}` directory	Directory containing the output files from bcftools isec `${prefix}/`

#2 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
isec	Computes intersections, unions and complements of VCF files.	http://samtools.github.io/bcftools/bcftools.html

Version	0.0.0-0c7146d
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	08 Apr 2026 18:45:55 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fbcftools%2Fisec/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/bcftools/isec/blobs/sha256:d537d283f73b8cde3949c19fd2c5111fc013b8351410a4241b97352b1f28e042
Size	3.8 KB
Checksum	sha256:d537d283f73b8cde3949c19fd2c5111fc013b8351410a4241b97352b1f28e042
Downloads	3

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:04:57 (UTC)		3	3.8 KB
0.0.0-0c7146d	08 Apr 2026 18:45:55 (UTC)		3	3.8 KB