Nextflow Registry | nf-core/custom/tabulartogseacls@0.0.0-0c7146d

nf-core/custom/tabulartogseacls @ 0.0.0-0c7146d

Make a GSEA class file (.cls) from tabular inputs

gsea cls convert tabular

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @pinin4fjords

Maintainers: @pinin4fjords

Summary

Make a GSEA class file (.cls) from tabular inputs

Get started

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

include { CUSTOM_TABULARTOGSEACLS } from 'nf-core/custom/tabulartogseacls'

License

MIT License

Process

`Name`	`CUSTOM_TABULARTOGSEACLS`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing metadata including an id, the sample sheet column used to define groups, and optionally a separator to override defaults e.g. [ id:'test', variable:'treatment', separator:',' ]. The way these values are passed to the associated module parameters is then defined via an ext.args specification for the process from the workflow, like: ext.args = { [ "separator": "\t", "variable": "$meta.variable" ] } ('variable' is compulsory here).
`samples` file	Tabular (e.g. TSV/CSV) samples file with sample IDs by row and variables by column. `*.{csv,tsv}`

meta map

Groovy Map containing metadata including an id, the sample sheet column used to define groups, and optionally a separator to override defaults e.g. [ id:'test', variable:'treatment', separator:',' ]. The way these values are passed to the associated module parameters is then defined via an ext.args specification for the process from the workflow, like: ext.args = { [ "separator": "\t", "variable": "$meta.variable" ] } ('variable' is compulsory here).

samples file

Tabular (e.g. TSV/CSV) samples file with sample IDs by row and variables by column.

*.{csv,tsv}

Output 2 channels

#1 cls tuple

`meta` map	Groovy Map containing metadata e.g. [ id:'test', variable:'treatment', separator:',' ]
`*.cls` file	A categorical class format file (.cls) as defined by the Broad documentation at https://software.broadinstitute.org/cancer/software/gsea/wiki/index.php/Data_formats

#2 versions_mawk tuple

`${task.process}` string	The name of the process
`mawk` string	The name of the tool
`mawk --version \| sed '1!d;s/mawk //;s/ .*//'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
custom	Make a GSEA class file (.cls) from tabular inputs	n/a

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:34:09 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fcustom%2Ftabulartogseacls/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/custom/tabulartogseacls/blobs/sha256:b13998ca4774d1b632825e35d3b4e27390d35f204b00280c80cddb4312793059
Size	3.1 KB
Checksum	sha256:b13998ca4774d1b632825e35d3b4e27390d35f204b00280c80cddb4312793059
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:34:09 (UTC)		1	3.1 KB	-