Nextflow Registry | nf-core/custom/tabulartogseacls@0.0.0-6c4ed3a

nf-core/custom/tabulartogseacls @ 0.0.0-6c4ed3a

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

gsea cls convert tabular

Latest version: 0.0.0-6c4ed3a

Total downloads: 10

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	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:12:19 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fcustom%2Ftabulartogseacls/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/custom/tabulartogseacls/blobs/sha256:0927a4c816a8c68759deefaac4aa36b1422b27a05de225505805c283151691ac
Size	3.1 KB
Checksum	sha256:0927a4c816a8c68759deefaac4aa36b1422b27a05de225505805c283151691ac
Downloads	4

Version	Date	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:12:19 (UTC)	4	3.1 KB
0.0.0-3fc6d40	22 Apr 2026 15:08:37 (UTC)	3	3.1 KB
0.0.0-0c7146d	08 Apr 2026 18:55:27 (UTC)	3	3.1 KB