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

KEGGgraph: A graph approach to KEGG PATHWAY in R and Bioconductor

Bioconductor version: Development (3.20)

KEGGGraph is an interface between KEGG pathway and graph object as well as a collection of tools to analyze, dissect and visualize these graphs. It parses the regularly updated KGML (KEGG XML) files into graph models maintaining all essential pathway attributes. The package offers functionalities including parsing, graph operation, visualization and etc.

Author: Jitao David Zhang, with inputs from Paul Shannon and Hervé Pagès

Maintainer: Jitao David Zhang <jitao_david.zhang at>

Citation (from within R, enter citation("KEGGgraph")):


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

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


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


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

KEGGgraph: Application Examples PDF R Script
KEGGgraph: graph approach to KEGG PATHWAY PDF R Script
Reference Manual PDF


biocViews GraphAndNetwork, KEGG, Pathways, Software, Visualization
Version 1.65.0
In Bioconductor since BioC 2.4 (R-2.9) (15 years)
License GPL (>= 2)
Depends R (>= 3.5.0)
Imports methods, XML (>= 2.3-0), graph, utils, RCurl, Rgraphviz
System Requirements
See More
Suggests RBGL, testthat, RColorBrewer,, hgu133plus2.db, SPIA
Linking To
Depends On Me lpNet, ROntoTools, SPIA
Imports Me clipper, DEGraph, EnrichmentBrowser, MetaboSignal, MWASTools, NCIgraph, pathview, iCARH
Suggests Me DEGraph, GenomicRanges, kangar00, maGUI, rags2ridges
Links To Me
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Package Archives

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

Source Package KEGGgraph_1.65.0.tar.gz
Windows Binary
macOS Binary (x86_64) KEGGgraph_1.65.0.tgz
macOS Binary (arm64) KEGGgraph_1.65.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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