KEGGgraph

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

Bioconductor version: 2.6

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 and Stefan Wiemann

Maintainer: Jitao David Zhang <j.zhang at dkfz.de>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("KEGGgraph")

To cite this package in a publication, start R and enter:

    citation("KEGGgraph")

Documentation

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

Details

biocViews	Pathways, GraphsAndNetworks
Depends	methods, XML (>= 2.3-0), graph, Rgraphviz(>= 1.22.0)
Imports
Suggests	RBGL, KEGG.db, org.Hs.eg.db, hgu133plus2.db, SPIA
System Requirements
License	GPL (>= 2)
URL	http://www.dkfz.de/en/mga/index.html
Depends On Me
Imports Me
Suggests Me	SPIA
Version	1.4.0
Since	Bioconductor 2.4 (R-2.9)

Package Downloads

Package Source	KEGGgraph_1.4.0.tar.gz
Windows Binary	KEGGgraph_1.4.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	KEGGgraph_1.4.0.tgz
Package Downloads Report	Download Stats

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