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A universal enrichment tool for interpreting omics data

Bioconductor version: Release (3.19)

This package supports functional characteristics of both coding and non-coding genomics data for thousands of species with up-to-date gene annotation. It provides a univeral interface for gene functional annotation from a variety of sources and thus can be applied in diverse scenarios. It provides a tidy interface to access, manipulate, and visualize enrichment results to help users achieve efficient data interpretation. Datasets obtained from multiple treatments and time points can be analyzed and compared in a single run, easily revealing functional consensus and differences among distinct conditions.

Author: Guangchuang Yu [aut, cre, cph] , Li-Gen Wang [ctb], Erqiang Hu [ctb], Xiao Luo [ctb], Meijun Chen [ctb], Giovanni Dall'Olio [ctb], Wanqian Wei [ctb], Chun-Hui Gao [ctb]

Maintainer: Guangchuang Yu <guangchuangyu at>

Citation (from within R, enter citation("clusterProfiler")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


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Statistical analysis and visualization of functional profiles for genes and gene clusters HTML R Script
Reference Manual PDF


biocViews Annotation, Clustering, GO, GeneSetEnrichment, KEGG, MultipleComparison, Pathways, Reactome, Software, Visualization
Version 4.12.0
In Bioconductor since BioC 2.8 (R-2.13) (13.5 years)
License Artistic-2.0
Depends R (>= 3.5.0)
Imports AnnotationDbi, downloader, DOSE(>= 3.23.2), dplyr, enrichplot(>= 1.9.3), GO.db, GOSemSim(>= 2.27.2), gson (>= 0.0.7), httr, igraph, magrittr, methods, plyr, qvalue, rlang, stats, tidyr, utils, yulab.utils (>= 0.0.7)
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Suggests AnnotationHub, knitr, jsonlite, readr, rmarkdown,, prettydoc, BiocManager, testthat
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Depends On Me maEndToEnd
Imports Me bioCancer, CaMutQC, CBNplot, CEMiTool, CeTF, debrowser, EasyCellType, epiregulon.extra, esATAC, famat, GDCRNATools, gINTomics, goSorensen, MAGeCKFlute, MetaPhOR, methylGSA, MicrobiomeProfiler, miRSM, Moonlight2R, MoonlightR, mosdef, PanomiR, pathlinkR, Pigengene, seqArchRplus, signatureSearch, ExpHunterSuite, recountWorkflow, TCGAWorkflow, DRviaSPCN, genekitr, Grouphmap, immcp, pathwayTMB, PMAPscore, RVA, tinyarray, TOmicsVis
Suggests Me ChIPseeker, cola, DAPAR, DOSE, enrichplot, EpiMix, GeDi, GeneTonic, GenomicSuperSignature, GeoTcgaData, ggkegg, GOSemSim, GRaNIE, GSEAmining, mastR, MesKit, paxtoolsr, ReactomePA, rrvgo, scFeatures, scGPS, simplifyEnrichment, TCGAbiolinks, tidybulk, vsclust, org.Mxanthus.db, aPEAR, GeneSelectR, grandR, MARVEL, OlinkAnalyze, ReporterScore, SCpubr
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Source Package clusterProfiler_4.12.0.tar.gz
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macOS Binary (x86_64) clusterProfiler_4.12.0.tgz
macOS Binary (arm64) clusterProfiler_4.12.0.tgz
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