DOSE (version 2.10.6)

enrichNCG: enrichNCG

Description

Enrichment analysis based on the Network of Cancer Genes database (http://ncg.kcl.ac.uk/)

Usage

enrichNCG(gene, pvalueCutoff = 0.05, pAdjustMethod = "BH", universe, minGSSize = 10, maxGSSize = 500, qvalueCutoff = 0.2, readable = FALSE)

Arguments

gene

a vector of entrez gene id

pvalueCutoff

pvalue cutoff

pAdjustMethod

one of "holm", "hochberg", "hommel", "bonferroni", "BH", "BY", "fdr", "none"

universe

background genes

minGSSize

minimal size of genes annotated by NCG category for testing

maxGSSize

maximal size of each geneSet for analyzing

qvalueCutoff

qvalue cutoff

readable

whether mapping gene ID to gene Name

Value

A enrichResult instance

Details

given a vector of genes, this function will return the enrichment NCG categories with FDR control