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

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

Merge TRGT VCFs from multiple samples

trgt repeat expansion pacbio genomics

Latest version: 0.0.0-6c4ed3a

Total downloads: 12

Source: nf-core/modules

Authors: @Schmytzi

Maintainers: @Schmytzi

Merge TRGT VCFs from multiple samples

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

include { TRGT_MERGE } from 'nf-core/trgt/merge'

MIT License

Process

`Name`	`TRGT_MERGE`

Input 3 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`vcfs` file	List containing VCF files from TRGT Must contain at least 2 elements unless `--force-single` is given Samples in each VCf must be pairwise disjoint
`tbis` file	List containing indexes of VCF files from TRGT Must contain at least 2 elements unless `--force-single` is given

#2 tuple

`meta2` map	Groovy map containing reference information e.g. `[ id: 'genome' ]`
`fasta` file	FASTA reference file (optional) Required if VCFs were generated with TRGT pre 1.0 `*.{fasta,fa,fna}`

#3 tuple

`meta3` map	Groovy map containing reference information e.g. `[ id: 'genome' ]`
`fai` file	Index for FASTA file (optional) Required if VCFs were generated with TRGT pre 1.0 `*.fai`

Output 3 channels

#1 vcf tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*.{vcf,vcf.gz,bcf,bcf.gz}` file	Merged output file `*.{vcf,vcf.gz,bcf,bcf.gz}`

#2 index tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*.{tbi,csi}` file	Index of merged output file `*.{tbi,csi}`

#3 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	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	08 Apr 2026 19:44:06 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Ftrgt%2Fmerge/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/trgt/merge/blobs/sha256:b81876d3e0d34061d98663dd55dae2c3c942f9829528856737b77e7573ea5f55
Size	4.1 KB
Checksum	sha256:b81876d3e0d34061d98663dd55dae2c3c942f9829528856737b77e7573ea5f55
Downloads	4

Version	Date	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:50:06 (UTC)	4	4.1 KB
0.0.0-3fc6d40	22 Apr 2026 15:34:43 (UTC)	4	4.1 KB
0.0.0-0c7146d	08 Apr 2026 19:44:06 (UTC)	4	4.1 KB