ggkegg

DOI: 10.18129/B9.bioc.ggkegg  

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

KEGG pathway visualization by ggplot2

Bioconductor version: Development (3.19)

This package aims to import, parse, and analyze KEGG data such as KEGG PATHWAY and KEGG MODULE. The package supports visualizing KEGG information using ggplot2 and ggraph through using the grammar of graphics. The package enables the direct visualization of the results from various omics analysis packages.

Author: Noriaki Sato [cre, aut]

Maintainer: Noriaki Sato <nori at hgc.jp>

Installation

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

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("ggkegg")

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("ggkegg")

 

HTML	R Script	ggkegg
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	DataImport, KEGG, Pathways, Software
Version	1.1.5
In Bioconductor since	BioC 3.18 (R-4.3) (< 6 months)
License	MIT + file LICENSE
Depends	R (>= 4.3.0), ggplot2, ggraph, XML, igraph, tidygraph
Imports	BiocFileCache, GetoptLong, data.table, dplyr, magick, patchwork, shadowtext, stringr, tibble, org.Hs.eg.db, methods, utils, stats, AnnotationDbi, grDevices, Cairo
LinkingTo
Suggests	knitr, clusterProfiler, bnlearn, rmarkdown, BiocStyle, testthat (>= 3.0.0)
SystemRequirements
Enhances
URL	https://github.com/noriakis/ggkegg
BugReports	https://github.com/noriakis/ggkegg/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	ggkegg_1.1.5.tar.gz
Windows Binary	ggkegg_1.1.5.zip
macOS Binary (x86_64)	ggkegg_1.1.5.tgz
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/ggkegg
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ggkegg
Bioc Package Browser	https://code.bioconductor.org/browse/ggkegg/
Package Short Url	https://bioconductor.org/packages/ggkegg/
Package Downloads Report	Download Stats