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

gct

meta

:map

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

*.gct

:file

GCT format version of input TSV

*.{gct}

versions_mawk

${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

Topics

name:type
description
pattern

versions

${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

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
included in
differentialabundance
maintainer
Github user pinin4fjords
get in touch
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