RDocumentation
Moon
Learn R
Search all packages and functions
⚠️
There's a newer version (3.0.4) of this package.
Take me there.
clusterProfiler (version 3.0.2)
statistical analysis and visulization of functional profiles for genes and gene clusters
Description
This package implements methods to analyze and visualize functional profiles (GO and KEGG) of gene and gene clusters.
Copy Link
Copy
Link to current version
Version
Version
3.0.4
3.0.2
2.4.1
2.2.7
2.0.1
Down Chevron
Version
3.0.2
License
Artistic-2.0
Maintainer
Guangchuang Yu
Last Published
January 1st, 1970
Functions in clusterProfiler (3.0.2)
Search functions
DataSet
Datasets gcSample contains a sample of gene clusters.
download.KEGG
download.KEGG
plotGOgraph
plotGOgraph
bitr_kegg
bitr_kegg
go2ont
go2ont
fortify.compareClusterResult
fortify
go2term
go2term
groupGOResult-class
Class "groupGOResult" This class represents the result of functional Profiles of a set of gene at specific GO level.
compareClusterResult-class
Class "compareClusterResult" This class represents the comparison result of gene clusters by GO categories at specific level or GO enrichment analysis.
plotting.clusterProfile
plotting-clusterProfile
buildGOmap
buildGOmap
gseGO
gseGO
enricher
enricher
gseKEGG
gseKEGG
enrichKEGG
KEGG Enrichment Analysis of a gene set. Given a vector of genes, this function will return the enrichment KEGG categories with FDR control.
gseMKEGG
gseMKEGG
merge_result
merge_result
enrichGO
GO Enrichment Analysis of a gene set. Given a vector of genes, this function will return the enrichment GO categories after FDR control.
gofilter
gofilter
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.
simplify
simplify method
dropGO
dropGO
bitr
bitr
enrichDAVID
enrichDAVID
read.gmt
read.gmt
idType
idType
Gff2GeneTable
Gff2GeneTable
dotplot,compareClusterResult-method
dotplot
plot
plot method
getGOLevel
get GOIDs at a specific level
search_kegg_organism
search_kegg_organism
enrichMKEGG
KEGG Module Enrichment Analysis of a gene set. Given a vector of genes, this function will return the enrichment KEGG Module categories with FDR control.
GSEA
GSEA
clusterProfiler-package
statistical analysis and visualization of functional profiles for genes and gene clusters The package implements methods to analyze and visualize functional profiles of gene and gene clusters.
compareCluster
Compare gene clusters functional profile
viewKEGG
viewKEGG function is for visualize KEGG pathways works with enrichResult object to visualize enriched KEGG pathway