Nextflow Registry | nf-core/expansionhunterdenovo/profile@0.0.0-0c7146d

nf-core/expansionhunterdenovo/profile @ 0.0.0-0c7146d

Compute genome-wide STR profile

expansionhunterdenovo profile STR genome bam cram

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @nvnieuwk

Maintainers: @nvnieuwk

Compute genome-wide STR profile

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

include { EXPANSIONHUNTERDENOVO_PROFILE } from 'nf-core/expansionhunterdenovo/profile'

MIT License

Process

`Name`	`EXPANSIONHUNTERDENOVO_PROFILE`

Input 3 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`alignment_file` file	BAM/CRAM file `*.{bam,cram}`
`alignment_index` file	Index of the BAM/CRAM file `*.{bai,crai}`

#2 tuple

`meta2` map	Groovy Map containing reference information e.g. [ id:'test' ]
`fasta` file	The FASTA reference file `*.{fasta,fa}`

#3 tuple

`meta3` map	Groovy Map containing reference information e.g. [ id:'test' ]
`fasta_fai` file	The index of the FASTA reference file `*.fai`

Output 4 channels

#1 versions

`versions.yml` file	File containing software versions `versions.yml`

#2 locus_tsv tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.locus.tsv` file	The locus TSV file `*.tsv`

#3 motif_tsv tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.motif.tsv` file	The motif TSV file `*.tsv`

#4 str_profile tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.str_profile.json` file	The JSON file containing the STR profile `*.json`

Tool	Description	Homepage
expansionhunterdenovo	ExpansionHunter Denovo (EHdn) is a suite of tools for detecting novel expansions of short tandem repeats (STRs).	https://github.com/Illumina/ExpansionHunterDenovo

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:37:34 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fexpansionhunterdenovo%2Fprofile/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/expansionhunterdenovo/profile/blobs/sha256:5aa491513c90068c12d63a6e60ad9496840d29c9cfa5c1c52fee0ab7e1cb8d95
Size	2.6 KB
Checksum	sha256:5aa491513c90068c12d63a6e60ad9496840d29c9cfa5c1c52fee0ab7e1cb8d95
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:37:34 (UTC)		1	2.6 KB	-