clusterProfiler: groupGO – R documentation

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groupGO

Functional Profile of a gene set at specific GO level. Given a vector of genes, this function will return the GO profile at a specific level.

Description

Functional Profile of a gene set at specific GO level. Given a vector of genes, this function will return the GO profile at a specific level.

Usage

groupGO(
  gene,
  OrgDb,
  keyType = "ENTREZID",
  ont = "CC",
  level = 2,
  readable = FALSE
)

Arguments

`gene`	a vector of entrez gene id.
`OrgDb`	OrgDb
`keyType`	key type of input gene
`ont`	One of "MF", "BP", and "CC" subontologies.
`level`	Specific GO Level.
`readable`	if readable is TRUE, the gene IDs will mapping to gene symbols.

Value

A groupGOResult instance.

Author(s)

Guangchuang Yu http://guangchuangyu.github.io

Examples

data(gcSample)
	yy <- groupGO(gcSample[[1]], 'org.Hs.eg.db', ont="BP", level=2)
	head(summary(yy))
	#plot(yy)

clusterProfiler

statistical analysis and visualization of functional profiles for genes and gene clusters

v3.18.1

Artistic-2.0

Authors

Guangchuang Yu [aut, cre, cph] (<https://orcid.org/0000-0002-6485-8781>), Li-Gen Wang [ctb], Giovanni Dall'Olio [ctb] (formula interface of compareCluster)

Initial release