Nextflow Registry | nf-core/trgt/plot@0.0.0-0c7146d

nf-core/trgt/plot @ 0.0.0-0c7146d

Visualize tandem repeats genotyped by TRGT

trgt repeat expansion plotting pacbio genomics

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @Schmytzi

Maintainers: @Schmytzi

Visualize tandem repeats genotyped by TRGT

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

include { TRGT_PLOT } from 'nf-core/trgt/plot'

MIT License

Process

`Name`	`TRGT_PLOT`

Input 4 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`bam` file	Sorted reads spanning tandem repeat from TRGT output `*.bam`
`bai` file	Index for reads `*.bai`
`vcf` file	Sorted tandem repeat genotypes called by TRGT `*.vcf.gz`
`tbi` file	Index for genotypes `*.{tbi,csi}`
`repeat_id` string	ID of tandem repeat to plot

#2 tuple

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

#3 tuple

`meta3` map	Groovy map containing reference information e.g. `[ id: 'genome' ]`
`fai` file	Index for FASTA file `*.fai`

#4 tuple

`meta4` map	Groovy map containing repeat information e.g. `[ id: 'repeats' ]`
`repeats` file	BED file with repeat coordinates and structure `*.bed`

Output 2 channels

#1 plot tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*.{png,pdf,svg}` file	Plot of region and reads spanning tandem repeat `*.{png,pdf,svg}`

#2 versions_trgt tuple

`${task.process}` string	The name of the process
`trgt` string	The name of the tool
`trgt --version \| sed 's/.* //g'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
trgt	Tandem repeat genotyping and visualization from PacBio HiFi data	https://github.com/PacificBiosciences/trgt

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:19:56 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Ftrgt%2Fplot/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/trgt/plot/blobs/sha256:8f3c4abcc9c404232032b3b833b04ea19b3cfa85594999240162d4b219417558
Size	3.2 KB
Checksum	sha256:8f3c4abcc9c404232032b3b833b04ea19b3cfa85594999240162d4b219417558
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:19:56 (UTC)		1	3.2 KB	-