# A universal enrichment tool for interpreting omics data

## Documentation for package ‘clusterProfiler’ version 4.16.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

append_kegg_category | append_kegg_category
bitr | bitr
bitr_kegg | bitr_kegg
browseKEGG | browseKEGG
compareCluster | Compare gene clusters functional profile
DataSet | Datasets gcSample contains a sample of gene clusters.
DE_GSE8057 | Datasets gcSample contains a sample of gene clusters.
download_KEGG | download_KEGG
dropGO | dropGO
enrichDAVID | enrichDAVID
enricher | enricher
enrichGO | GO Enrichment Analysis of a gene set. Given a vector of genes, this function will return the enrichment GO categories after FDR control.
enrichKEGG | KEGG Enrichment Analysis of a gene set. Given a vector of genes, this function will return the enrichment KEGG categories with FDR control.
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.
enrichPC | enrichPC
enrichWP | enrichWP
gcSample | Datasets gcSample contains a sample of gene clusters.
getPPI | getPPI
getTaxID | getTaxID
getTaxInfo | getTaxInfo
get_wp_organisms | get_wp_organism
Gff2GeneTable | Gff2GeneTable
go2ont | go2ont
go2term | go2term
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.
groupGOResult-class | Class "groupGOResult" This class represents the result of functional Profiles of a set of gene at specific GO level.
GSEA | GSEA
gseGO | gseGO
gseKEGG | gseKEGG
gseMKEGG | gseMKEGG
gsePC | gsePC
gseWP | gseWP
gson_GO | gson_KEGG
gson_KEGG | gson_KEGG
gson_KEGG_mapper | Build KEGG annotation for novel species using KEGG Mapper
gson_WP | gson_WP
idType | idType
kegg_category | Datasets gcSample contains a sample of gene clusters.
kegg_species | Datasets gcSample contains a sample of gene clusters.
ko2name | ko2name
merge_result | merge_result
plotGOgraph | plotGOgraph
read.gmt.pc | read.gmt.pc
search_kegg_organism | search_kegg_organism
show-method | Class "groupGOResult" This class represents the result of functional Profiles of a set of gene at specific GO level.
simplify | simplify method
simplify-method | simplify method
uniprot_get | uniprot_get