Nextflow Registry | nf-core/shinyngs/validatefomcomponents@0.0.0-6c4ed3a

nf-core/shinyngs/validatefomcomponents @ 0.0.0-6c4ed3a

validate consistency of feature and sample annotations with matrices and contrasts

expression features observations validation

Latest version: 0.0.0-6c4ed3a

Total downloads: 9

Source: nf-core/modules

Authors: @pinin4fjords

Maintainers: @pinin4fjords

validate consistency of feature and sample annotations with matrices and contrasts

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

include { SHINYNGS_VALIDATEFOMCOMPONENTS } from 'nf-core/shinyngs/validatefomcomponents'

MIT License

Process

`Name`	`SHINYNGS_VALIDATEFOMCOMPONENTS`

Input 3 channels

#1 tuple

`meta` map	Groovy Map containing information on experiment, at a minimum an id. e.g. [ id:'test' ]
`sample` file	CSV-format sample sheet with sample metadata
`assay_files` file	List of TSV-format matrix files representing different measures for the same samples (e.g. raw and normalised).

#2 tuple

`meta2` map	Groovy Map containing information on features. e.g. [ id:'test' ]
`feature_meta` file	TSV-format feature (e.g. gene) metadata

#3 tuple

`meta3` map	Groovy Map containing information on contrasts. e.g. [ id:'test' ]
`contrasts` file	CSV-format file with four columns identifying the sample sheet variable, reference level, treatment level, and optionally a comma-separated list of covariates used as blocking factors.

Output 5 channels

#1 assays tuple

`meta` map	Groovy Map containing information on experiment. e.g. [ id:'test' ]
`/.assay.tsv` file	Files containing validated matrices `/*.assay.tsv`

#2 contrasts tuple

`meta` map	Groovy Map containing information on experiment. e.g. [ id:'test' ]
`/.contrasts_file.tsv` file	Files containing validated matrices `/*.contrasts_file.tsv`

#3 sample_meta tuple

`meta` map	Groovy Map containing information on experiment. e.g. [ id:'test' ]
`/.sample_metadata.tsv` file	File containing validated sample metadata `/*.sample_metadata.tsv`

#4 feature_meta tuple

`meta` map	Groovy Map containing information on experiment. e.g. [ id:'test' ]
`/.feature_metadata.tsv` file	File containing validated feature metadata `/*.feature_metadata.tsv`

#5 versions_shinyngs tuple

`${task.process}` string	The name of the process
`shinyngs` string	The name of the tool
`Rscript -e "library(shinyngs); cat(as.character(packageVersion('shinyngs')))"` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
shinyngs	Provides Shiny applications for various array and NGS applications. Currently very RNA-seq centric, with plans for expansion.	https://github.com/pinin4fjords/shinyngs

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:46:06 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fshinyngs%2Fvalidatefomcomponents/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/shinyngs/validatefomcomponents/blobs/sha256:1e188c42094b646597996b41c919cfe8bffb306f118ecaee7f05475b73b78efc
Size	3.4 KB
Checksum	sha256:1e188c42094b646597996b41c919cfe8bffb306f118ecaee7f05475b73b78efc