Description

Convert a TSV or CSV with features by row and observations by column to a GCT format file as consumed by GSEA

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing matrix information
e.g. [ id:‘test’ ]

tabular (file)

Tabular (e.g. TSV or CSV file) containing a numeric matrix with features (e.g. genes) by row and samples by column.

*.{tsv,csv}

Output

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing matrix information
e.g. [ id:‘test’ ]

gct (file)

GCT format version of input TSV

*.{gct}

versions (file)

File containing software versions

versions.yml
included in
differentialabundance
author
Github user pinin4fjords
get in touch
Ask a question on Slack Open an issue on GitHub

Tools

tabulartogseagct

Convert a TSV or CSV with features by row and observations by column to a GCT format file as consumed by GSEA

https://github.com/nf-core/modules/blob/master/modules/nf-core/custom/tabulartogseagct/main.nf