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

pathview

a tool set for pathway based data integration and visualization

Bioconductor version: 2.13

Pathview is a tool set for pathway based data integration and visualization. It maps and renders a wide variety of biological data on relevant pathway graphs. All users need is to supply their data and specify the target pathway. Pathview automatically downloads the pathway graph data, parses the data file, maps user data to the pathway, and render pathway graph with the mapped data. In addition, Pathview also seamlessly integrates with pathway and gene set (enrichment) analysis tools for large-scale and fully automated analysis.

Author: Weijun Luo

Maintainer: Weijun Luo <luo_weijun at yahoo.com>

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("pathview")

 

PDF	R Script	Pathview: pathway based data integration and visualization
PDF		Reference Manual
Text		NEWS

Details

biocViews	Bioinformatics, DifferentialExpression, GeneExpression, GeneSetEnrichment, Genetics, GraphsAndNetworks, Metabolomics, Microarray, NetworkVisualization, Pathways, Proteomics, RNAseq, Software
Version	1.2.4
In Bioconductor since	BioC 2.12 (R-3.0)
License	GPL (>=3.0)
Depends	R (>= 2.10), KEGGgraph, org.Hs.eg.db
Imports	Rgraphviz, graph, png, AnnotationDbi, KEGGREST, methods, utils
Suggests	gage, org.Mm.eg.db, RUnit, BiocGenerics
System Requirements
URL	http://pathview.r-forge.r-project.org/
Depends On Me
Imports Me
Suggests Me	clusterProfiler, gage, gageData

Package Archives

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

Package Source	pathview_1.2.4.tar.gz
Windows Binary	pathview_1.2.4.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	pathview_1.2.4.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats