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: 0.0.0-6c4ed3a

Total downloads: 8

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	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	08 Apr 2026 18:46:22 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fbcftools%2Froh/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/bcftools/roh/blobs/sha256:f211b96a13fea9152a3829b84ba62dfe24bf44869340f71dcf11081c83ab11dd
Size	2.8 KB
Checksum	sha256:f211b96a13fea9152a3829b84ba62dfe24bf44869340f71dcf11081c83ab11dd
Downloads	5

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:05:15 (UTC)		3	2.8 KB
0.0.0-0c7146d	08 Apr 2026 18:46:22 (UTC)		5	2.8 KB