Description

Perform Gene Ratio Enrichment Analysis

Input

name:type
description
pattern

meta:map

Groovy Map containing data information. This can be used at the workflow level to pass optional parameters to the module. [id: ‘test’, …]

adjacency:file

Adjacency matrix representing the graph connections (ie. 1 for edges, 0 otherwise). This can be the adjacency matrix output from gene ratio approaches like propr/propd.

*.{csv,tsv}

meta2:map

Groovy Map containing data information. This can be used at the workflow level to pass optional parameters to the module. [id: ‘test’, …]

gmt:file

A tab delimited file format that describes gene sets. The first column is the concept id (eg. GO term, pathway, etc), the second column is the concept description, and the rest are nodes (eg. genes) that is associated to the given concept.

*.{gmt}

Output

name:type
description
pattern

results

meta:file

Groovy Map containing sample information. This can be used at the workflow level to pass optional parameters to the module. [id: ‘test’, …]

*.grea.tsv:file

Output file containing the information about the tested concepts (ie. gene sets) and enrichment statistics.

*.grea.tsv

versions

versions.yml:file

File containing software versions

versions.yml

session_info

*.R_sessionInfo.log:file

dump of R SessionInfo

*.R_sessionInfo.log