GSEAGO_Builder {GmicR}R Documentation

GO enrichment for module names

Description

GO enrichment for module names

Usage

GSEAGO_Builder(
  Auto_WGCNA_OUTPUT,
  species = "Homo sapiens",
  ontology = "BP",
  GO_conditional = FALSE,
  colname_correct = TRUE
)

Arguments

Auto_WGCNA_OUTPUT

output from Auto_WGCNA function.

species

either 'Homo sapiens' (default) or 'Mus musculus'.

ontology

string either 'BP'(Biological Process; default), 'CC'(Cellular Component), or 'MF' (Molecular Function).

GO_conditional

A logical indicating whether the calculation should condition on the GO structure. will not be carried out. If TRUE,

colname_correct

a logical value. If TRUE (default), "." in gene names will be replaced with "-". This corrects a name change that is induced by R when creating a data.frame. If FALSE, no changes will be made.

Value

Lists with gene ontology enrichment analysis, performed using GOstats, for each module.

Note

gene names must be official gene symbol


[Package GmicR version 1.0.6 Index]