enrichMOA: MOA Category Enrichment with Hypergeometric Test

In yduan004/signatureSearch: Environment for Gene Expression Searching Combined with Functional Enrichment Analysis

MOA Category Enrichment with Hypergeometric Test

Description

Given a vector of gene identifiers, this function returns MOA category enrichment results based on a hypergeometric test with duplication support in the test set. The universe for the test is set to the unique genes encoding the target proteins present in the MOA annotation system from the ChEMBL database.

Usage

enrichMOA(gene, pvalueCutoff = 0.05, pAdjustMethod = "BH", qvalueCutoff = 0.2)

Arguments

gene	a vector of entrez gene ids (here the test set)
pvalueCutoff	pvalue cutoff
pAdjustMethod	one of "holm", "hochberg", "hommel", "bonferroni", "BH", "BY", "fdr", "none"
qvalueCutoff	qvalue cutoff

Value

A feaResult instance.

See Also

feaResult-class

Examples

data(geneList, package="DOSE")
emoa <- enrichMOA(gene = names(geneList)[seq(3)])
head(emoa)

yduan004/signatureSearch documentation built on Feb. 19, 2024, 9:30 a.m.