Nextflow Registry | nf-core/somalier/relate@0.0.0-0c7146d

nf-core/somalier/relate @ 0.0.0-0c7146d

Somalier can extract informative sites, evaluate relatedness, and perform quality-control on BAM/CRAM/BCF/VCF/GVCF or from jointly-called VCFs

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @ashotmarg @nvnieuwk

Maintainers: @ashotmarg @nvnieuwk

Somalier can extract informative sites, evaluate relatedness, and perform quality-control on BAM/CRAM/BCF/VCF/GVCF or from jointly-called VCFs

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

include { SOMALIER_RELATE } from 'nf-core/somalier/relate'

MIT License

Process

`Name`	`SOMALIER_RELATE`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`extract` file	extract file(s) from Somalier extract `*.somalier`
`ped` file	optional path to a ped or fam file indicating the expected relationships among samples `*.{ped,fam}`

`sample_groups` file	optional path to expected groups of samples such as tumor normal pairs specified as comma-separated groups per line `*.{txt,csv}`

Output 4 channels

#1 html tuple

`meta` file	html file `*.html`
`*.html` file	html file `*.html`

#2 pairs_tsv tuple

`meta` file	html file `*.html`
`*.pairs.tsv` file	tsv file with output stats for pairs of samples `*.pairs.tsv`

#3 samples_tsv tuple

`meta` file	html file `*.html`
`*.samples.tsv` file	tsv file with sample-level information `*.samples.tsv`

#4 versions_somalier tuple

`${task.process}` string	The name of the process
`somalier` string	The name of the tool
`somalier 2>&1 \| sed -n 's/.version: $[0-9.]$.*/\1/p'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
somalier	Somalier can extract informative sites, evaluate relatedness, and perform quality-control on BAM/CRAM/BCF/VCF/GVCF or from jointly-called VCFs	https://github.com/brentp/somalier

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:15:40 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fsomalier%2Frelate/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/somalier/relate/blobs/sha256:21a25b6bd3c7db507660f1b259b07be82df100db8516bded349cb03f1ce0d51d
Size	3.0 KB
Checksum	sha256:21a25b6bd3c7db507660f1b259b07be82df100db8516bded349cb03f1ce0d51d
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:15:40 (UTC)		1	3.0 KB	-