clusterProfiler
This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see clusterProfiler.
statistical analysis and visualization of functional profiles for genes and gene clusters
Bioconductor version: 3.6
This package implements methods to analyze and visualize functional profiles (GO and KEGG) of gene and gene clusters.
Author: Guangchuang Yu [aut, cre], Li-Gen Wang [ctb], Giovanni Dall'Olio [ctb] (formula interface of compareCluster)
Maintainer: Guangchuang Yu <guangchuangyu at gmail.com>
Citation (from within R, enter
citation("clusterProfiler")):
Installation
To install this package, start R (version "3.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("clusterProfiler")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual | |
| NEWS | Text |
Details
| biocViews | Annotation, Clustering, GO, GeneSetEnrichment, KEGG, MultipleComparison, Pathways, Reactome, Software, Visualization |
| Version | 3.6.0 |
| In Bioconductor since | BioC 2.8 (R-2.13) (13 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.3.1), DOSE(>= 3.3.2) |
| Imports | AnnotationDbi, ggplot2, GO.db, GOSemSim(>= 2.0.0), magrittr, methods, plyr, qvalue, rvcheck, stats, stats4, tidyr, utils |
| System Requirements | |
| URL | https://guangchuangyu.github.io/clusterProfiler |
| Bug Reports | https://github.com/GuangchuangYu/clusterProfiler/issues |
See More
| Suggests | AnnotationHub, GSEABase, KEGG.db, knitr, org.Hs.eg.db, prettydoc, pathview, ReactomePA, testthat, topGO |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | bioCancer, CEMiTool, DAPAR, debrowser, eegc, esATAC, LINC, miRsponge, MoonlightR, TCGAbiolinksGUI |
| Suggests Me | ChIPseeker, DOSE, GOSemSim, isomiRs, ReactomePA, TCGAbiolinks |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | clusterProfiler_3.6.0.tar.gz |
| Windows Binary | clusterProfiler_3.6.0.zip |
| Mac OS X 10.11 (El Capitan) | clusterProfiler_3.6.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/clusterProfiler |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/clusterProfiler |
| Package Short Url | https://bioconductor.org/packages/clusterProfiler/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.6 | Source Archive |