getGOTable: Generate gene ontology table and data with topGO from...

In taylo5jm/interactions: Classification of gene expression profile sets generated from combination stimuli

Description

Generate gene ontology table and data with topGO from interaction data.frame using Fisher's Exact Test

Usage

getGOTable(data, interaction.tbl, ontology, filter.mode = FALSE)

Arguments

data	EList or DGEList with massaged counts and all 0 rows removed (see dge2voom_q())
interaction.tbl	data.frame where rows are genes and (see interactionGeneTable())
ontology	character vector of length n = 1 indicating gene ontology
filter.mode	Boolean FALSE when all genes in the interaction table are used to construct the gene vector. TRUE when the gene vector should be constructed only from genes classified into a particular mode

Value

list where list[[1]] is a topGO table and list[[2]] is a topGO data object

Examples

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taylo5jm/interactions documentation built on May 31, 2019, 3:57 a.m.