enricher_internal: enrich.internal

In DOSE: Disease Ontology Semantic and Enrichment analysis

Description

interal method for enrichment analysis

Usage

enricher_internal(
  gene,
  pvalueCutoff,
  pAdjustMethod = "BH",
  universe = NULL,
  minGSSize = 10,
  maxGSSize = 500,
  qvalueCutoff = 0.2,
  USER_DATA
)

Arguments

gene	a vector of entrez gene id.
pvalueCutoff	Cutoff value of pvalue.
pAdjustMethod	one of "holm", "hochberg", "hommel", "bonferroni", "BH", "BY", "fdr", "none"
universe	background genes
minGSSize	minimal size of genes annotated by Ontology term for testing.
maxGSSize	maximal size of each geneSet for analyzing
qvalueCutoff	cutoff of qvalue
USER_DATA	ontology information

Details

using the hypergeometric model

Value

A enrichResult instance.

Author(s)

Guangchuang Yu http://guangchuangyu.github.io

DOSE documentation built on Nov. 8, 2020, 7:48 p.m.