enricher_internal: enrich.internal

Description Usage Arguments Details Value Author(s)

View source: R/enricher_internal.R

Description

interal method for enrichment analysis

Usage

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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.