Nextflow Registry | nf-core/pcgr/getref@0.0.0-0c7146d

nf-core/pcgr/getref @ 0.0.0-0c7146d

Get reference to run Personal Cancer Genome Reporter (PCGR)

cancer reference pcgr mtb

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @famosab

Maintainers: @famosab

Get reference to run Personal Cancer Genome Reporter (PCGR)

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

include { PCGR_GETREF } from 'nf-core/pcgr/getref'

MIT License

Process

`Name`	`PCGR_GETREF`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`bundleversion` string	PCGR reference data bundle version `[0-9]`
`genome` string	PCGR reference genome version `grch37\|grch38`

Output 4 channels

#1 pcgrref tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`${bundleversion}` directory	PCGR reference data directory `{bundleversion}/`

#2 versions_tar tuple

`${task.process}` string	The process the versions were collected from
`tar` string	The tool name
`tar --version \| head -1 \| cut -d ' ' -f 4` string	The command used to generate the version of the tool

#3 versions_curl tuple

`${task.process}` string	The process the versions were collected from
`curl` string	The tool name
`curl --version \| head -1 \| cut -d ' ' -f 2` string	The command used to generate the version of the tool

#4 versions_gzip tuple

`${task.process}` string	The process the versions were collected from
`gzip` string	The tool name
`gzip --version \| head -1 \| cut -d ' ' -f 2` string	The command used to generate the version of the tool

Tool	Description	Homepage
pcgr	The Personal Cancer Genome Reporter (PCGR) is a stand-alone software package for functional annotation and translation of individual tumor genomes for precision cancer medicine	https://sigven.github.io/pcgr/index.html

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:01:54 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fpcgr%2Fgetref/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/pcgr/getref/blobs/sha256:159e9c659ace4480eead1515412255dfeab02b0ae04bc3e94a8b694fefa706d9
Size	2.5 KB
Checksum	sha256:159e9c659ace4480eead1515412255dfeab02b0ae04bc3e94a8b694fefa706d9
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:01:54 (UTC)		1	2.5 KB	-