ggkegg
KEGG pathway visualization by ggplot2
Bioconductor version: Release (3.18)
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>
citation("ggkegg")):
Installation
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
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")| ggkegg | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | DataImport, KEGG, Pathways, Software |
| Version | 1.0.13 |
| 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, gtable |
| System Requirements | |
| URL | https://github.com/noriakis/ggkegg |
| Bug Reports | https://github.com/noriakis/ggkegg/issues |
See More
| Suggests | knitr, clusterProfiler, bnlearn, rmarkdown, BiocStyle, testthat (>= 3.0.0) |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | ggkegg_1.0.13.tar.gz |
| Windows Binary | ggkegg_1.0.13.zip (64-bit only) |
| macOS Binary (x86_64) | ggkegg_1.0.13.tgz |
| macOS Binary (arm64) | ggkegg_1.0.13.tgz |
| 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 |
| Old Source Packages for BioC 3.18 | Source Archive |