KEGGgraph

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

Bioconductor version: Release (2.12)

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

Maintainer: Jitao David Zhang <jitao_david.zhang at roche.com>

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
Text		NEWS

Details

biocViews	GraphsAndNetworks, NetworkVisualization, Pathways, Software
Version	1.16.0
In Bioconductor since	BioC 2.4 (R-2.9)
License	GPL (>= 2)
Depends	R (>= 2.10), methods, XML (>= 2.3-0), graph
Imports	methods, XML, graph
Suggests	Rgraphviz, RBGL, RUnit, RColorBrewer, KEGG.db, org.Hs.eg.db, hgu133plus2.db, SPIA
System Requirements
URL	http://www.nextbiomotif.com
Depends On Me	pathview, ROntoTools, SPIA
Imports Me	clipper, DEGraph, NCIgraph
Suggests Me	DEGraph

Package Downloads

Package Source	KEGGgraph_1.16.0.tar.gz
Windows Binary	KEGGgraph_1.16.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	KEGGgraph_1.16.0.tgz
Package Downloads Report	Download Stats

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