Pathview: an R/Bioconductor package for pathway-based data integration and visualization

Author Affiliations:Weijun Luo,Cory Brouwer

Department of Bioinformatics and Genomics, UNC Charlotte, Charlotte, NC 28223 and 

²UNC 

Charlotte Department of Bioinformatics and Genomics, North Carolina Research Campus,

 Kannapolis, NC 28081, USA

Abstract

Summary: Pathview is a novel tool set for pathway-based data integration and visualization. It maps and renders user data on relevant pathway graphs. Users only need to supply their data and specify the target pathway. Pathview automatically downloads the pathway graph data, parses the data file, maps and integrates user data onto the pathway and renders pathway graphs with the mapped data. Although built as a stand-alone program, Pathview may seamlessly integrate with pathway and functional analysis tools for large-scale and fully automated analysis pipelines.

Availability: The package is freely available under the GPLv3 license through Bioconductor and R-Forge. It is available athttp://bioconductor.org/packages/release/bioc/html/pathview.html and at http://Pathview.r-forge.r-project.org/.

Contact: luo_weijun@yahoo.com

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