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

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

A program for detecting runs of homo/autozygosity. Only bi-allelic sites are considered.

roh biallelic homozygosity autozygosity

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @ramprasadn

Maintainers: @ramprasadn

A program for detecting runs of homo/autozygosity. Only bi-allelic sites are considered.

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

include { BCFTOOLS_ROH } from 'nf-core/bcftools/roh'

MIT License

Process

`Name`	`BCFTOOLS_ROH`

Input 6 channels

#1 tuple

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

#2 tuple

`af_file` file	Read allele frequencies from a tab-delimited file containing the columns: CHROM POS REF,ALT AF.
`af_file_tbi` file	tbi index of af_file.

`genetic_map` file	Genetic map in the format required also by IMPUTE2.

`regions_file` file	Regions can be specified either on command line or in a VCF, BED, or tab-delimited file (the default).

`samples_file` file	File of sample names to include or exclude if prefixed with '^'.

`targets_file` file	Targets can be specified either on command line or in a VCF, BED, or tab-delimited file (the default).

Output 2 channels

#1 roh tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.roh` file	Contains site-specific and/or per-region runs of homo/autozygosity calls. `*.{roh}`

#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
roh	A program for detecting runs of homo/autozygosity. Only bi-allelic sites are considered.	https://www.htslib.org/

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:25:40 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fbcftools%2Froh/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/bcftools/roh/blobs/sha256:38f068c8670f74e2d6ac9d039bec7240ccfc9899ab791eddd3669c87395825b8
Size	2.7 KB
Checksum	sha256:38f068c8670f74e2d6ac9d039bec7240ccfc9899ab791eddd3669c87395825b8
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:25:40 (UTC)		1	2.7 KB	-