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nf-core/somalier/relate @ 0.0.0-6c4ed3a

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

relatedness QC bam cram vcf gvcf ancestry identity kinship informative sites family
Latest version: 0.0.0-6c4ed3a
Total downloads: 10
Source: nf-core/modules
Authors: @ashotmarg @nvnieuwk
Maintainers: @ashotmarg @nvnieuwk

Summary

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

Get started

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

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

License

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 0.0.0-6c4ed3a
Commit ID 6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date 23 Apr 2026 15:46:52 (UTC)
Download URL https://registry.nextflow.io/api/v1/modules/nf-core%2Fsomalier%2Frelate/0.0.0-6c4ed3a/download
OCI Store URL https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/somalier/relate/blobs/sha256:a31dc6f55c9b3d6e2967957d7cf24d547d0730089d5e7937d74a3edbd656a07d
Size 3.0 KB
Checksum sha256:a31dc6f55c9b3d6e2967957d7cf24d547d0730089d5e7937d74a3edbd656a07d
Downloads 3
Version Date Status Downloads Size
0.0.0-6c4ed3a 23 Apr 2026 15:46:52 (UTC) 3 3.0 KB
0.0.0-3fc6d40 22 Apr 2026 15:32:22 (UTC) 3 3.0 KB
0.0.0-0c7146d 08 Apr 2026 19:39:44 (UTC) 4 3.0 KB