ORA: Over-representation Analysis

In PPInfer: Inferring functionally related proteins using protein interaction networks

Description

the result from the over-representation analysis

Usage

ORA(pathways, gene.id, minSize = 1, maxSize = Inf,
    p.adjust.methods = NULL)

Arguments

pathways	list of gene sets
gene.id	set of genes
minSize	Minimal size of a gene set
maxSize	Maximal size of a gene set
p.adjust.methods	a correction method

Value

ORA result

Author(s)

Dongmin Jung, Xijin Ge

See Also

fisher.test

Examples

data(examplePathways)
data(exampleRanks)
geneNames <- names(exampleRanks)
set.seed(1)
gene.id <- sample(geneNames, 100)
ORA(examplePathways, gene.id)

PPInfer documentation built on Nov. 8, 2020, 7:52 p.m.