NAViGaTOR: Network Analysis, Visualization and Graphing Toronto

Open Access

16 October 2009

journal article
research article
Published by Oxford University Press (OUP) in Bioinformatics

Vol. 25 (24) , 3327-3329
https://doi.org/10.1093/bioinformatics/btp595

Abstract

Summary: NAViGaTOR is a powerful graphing application for the 2D and 3D visualization of biological networks. NAViGaTOR includes a rich suite of visual mark-up tools for manual and automated annotation, fast and scalable layout algorithms and OpenGL hardware acceleration to facilitate the visualization of large graphs. Publication-quality images can be rendered through SVG graphics export. NAViGaTOR supports community-developed data formats (PSI-XML, BioPax and GML), is platform-independent and is extensible through a plug-in architecture. Availability: NAViGaTOR is freely available to the research community from http://ophid.utoronto.ca/navigator/. Installers and documentation are provided for 32- and 64-bit Windows, Mac, Linux and Unix. Contact:juris@ai.utoronto.ca Supplementary information: Supplementary data are available at Bioinformatics online.

Keywords

This publication has 22 references indexed in Scilit:

JNets: Exploring networks by integrating annotation
BMC Bioinformatics, 2009
FORG3D: Force-directed 3D graph editor for visualization of integrated genome scale data
BMC Systems Biology, 2009
BioGraphE: high-performance bionetwork analysis using the Biological Graph Environment
BMC Bioinformatics, 2008
Towards a proteome-scale map of the human protein–protein interaction network
Nature, 2005
The HUPO PSI's Molecular Interaction format—a community standard for the representation of protein interaction data
Nature Biotechnology, 2004
IntAct: an open source molecular interaction database
Nucleic Acids Research, 2004
Human protein reference database as a discovery resource for proteomics
Nucleic Acids Research, 2004
Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks
Genome Research, 2003
BIND: the Biomolecular Interaction Network Database
Nucleic Acids Research, 2003
KEGG: Kyoto Encyclopedia of Genes and Genomes
Nucleic Acids Research, 2000