enrichplot

DOI: 10.18129/B9.bioc.enrichplot    

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see enrichplot.

Visualization of Functional Enrichment Result

Bioconductor version: 3.14

The 'enrichplot' package implements several visualization methods for interpreting functional enrichment results obtained from ORA or GSEA analysis. It is mainly designed to work with the 'clusterProfiler' package suite. All the visualization methods are developed based on 'ggplot2' graphics.

Author: Guangchuang Yu [aut, cre] , Erqiang Hu [ctb]

Maintainer: Guangchuang Yu <guangchuangyu at gmail.com>

Installation

To install this package, start R (version "4.1") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("enrichplot")

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("enrichplot")

 

HTML		enrichplot
PDF		Reference Manual
Text		NEWS

Details

biocViews	Annotation, GO, GeneSetEnrichment, KEGG, Pathways, Software, Visualization
Version	1.14.2
In Bioconductor since	BioC 3.7 (R-3.5) (4 years)
License	Artistic-2.0
Depends	R (>= 3.5.0)
Imports	aplot, DOSE(>= 3.16.0), ggplot2, ggraph, graphics, grid, igraph, methods, plyr, purrr, RColorBrewer, reshape2, stats, utils, scatterpie, shadowtext, GOSemSim, magrittr, ggtree, yulab.utils (>= 0.0.4)
LinkingTo
Suggests	clusterProfiler, dplyr, europepmc, ggupset, knitr, rmarkdown, org.Hs.eg.db, prettydoc, tibble, tidyr, ggforce, AnnotationDbi, ggplotify, ggridges, grDevices, gridExtra, ggnewscale, ggrepel (>= 0.9.0), ggstar, treeio, scales, tidytree, ggtreeExtra
SystemRequirements
Enhances
URL	https://yulab-smu.top/biomedical-knowledge-mining-book/
BugReports	https://github.com/GuangchuangYu/enrichplot/issues
Depends On Me	maEndToEnd
Imports Me	ChIPseeker, clusterProfiler, debrowser, ExpHunterSuite, MAGeCKFlute, meshes, MicrobiomeProfiler, multiSight, ReactomePA
Suggests Me	methylGSA
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	enrichplot_1.14.2.tar.gz
Windows Binary	enrichplot_1.14.2.zip
macOS 10.13 (High Sierra)	enrichplot_1.14.2.tgz
Source Repository	git clone https://git.bioconductor.org/packages/enrichplot
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/enrichplot
Package Short Url	https://bioconductor.org/packages/enrichplot/
Package Downloads Report	Download Stats