enricher: enricher

In aiminy/ModifiedclusterProfiler: statistical analysis and visualization of functional profiles for genes and gene clusters

Description

A universal enrichment analyzer

Usage

enricher(gene, pvalueCutoff = 0.05, pAdjustMethod = "BH", universe,
  minGSSize = 10, maxGSSize = 500, qvalueCutoff = 0.2, TERM2GENE,
  TERM2NAME = NA)

Arguments

gene	a vector of 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 for testing
maxGSSize	maximal size of genes annotated for testing
qvalueCutoff	qvalue cutoff
TERM2GENE	user input annotation of TERM TO GENE mapping, a data.frame of 2 column with term and gene
TERM2NAME	user input of TERM TO NAME mapping, a data.frame of 2 column with term and name

Value

A enrichResult instance

Author(s)

Guangchuang Yu

aiminy/ModifiedclusterProfiler documentation built on May 10, 2019, 7:37 a.m.