DOI: 10.18129/B9.bioc.clusterProfiler    

This is the development version of clusterProfiler; for the stable release version, see clusterProfiler.

A universal enrichment tool for interpreting omics data

Bioconductor version: Development (3.17)

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>

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


biocViews Annotation, Clustering, GO, GeneSetEnrichment, KEGG, MultipleComparison, Pathways, Reactome, Software, Visualization
Version 4.7.0
In Bioconductor since BioC 2.8 (R-2.13) (11.5 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, gson (>= 0.0.7), magrittr, methods, plyr, qvalue, rlang, stats, tidyr, utils, yulab.utils
Suggests AnnotationHub, knitr, rmarkdown,, prettydoc, ReactomePA, testthat
Depends On Me maEndToEnd
Imports Me bioCancer, CEMiTool, CeTF, debrowser, EasyCellType, eegc, enrichTF, esATAC, ExpHunterSuite, famat, fcoex, GDCRNATools, goSorensen, IRISFGM, MAGeCKFlute, MetaPhOR, methylGSA, MicrobiomeProfiler, miRspongeR, MoonlightR, multiSight, netboxr, PanomiR, PFP, Pigengene, recountWorkflow, signatureSearch, TCGAWorkflow, TimiRGeN
Suggests Me ChIPseeker, cola, DAPAR, DOSE, enrichplot, EpiCompare, epihet, EpiMix, GeneTonic, GenomicSuperSignature, GOSemSim, GRaNIE, GSEAmining, MesKit, paxtoolsr, ReactomePA, rrvgo, scGPS, simplifyEnrichment, TCGAbiolinks, tidybulk, vsclust
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