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Presenting and exploring biological pathways with PathVisio
- Source :
- BMC Bioinformatics, Vol 9, Iss 1, p 399 (2008)
- Publication Year :
- 2008
- Publisher :
- BMC, 2008.
-
Abstract
- Abstract Background Biological pathways are a useful abstraction of biological concepts, and software tools to deal with pathway diagrams can help biological research. PathVisio is a new visualization tool for biological pathways that mimics the popular GenMAPP tool with a completely new Java implementation that allows better integration with other open source projects. The GenMAPP MAPP file format is replaced by GPML, a new XML file format that provides seamless exchange of graphical pathway information among multiple programs. Results PathVisio can be combined with other bioinformatics tools to open up three possible uses: visual compilation of biological knowledge, interpretation of high-throughput expression datasets, and computational augmentation of pathways with interaction information. PathVisio is open source software and available at http://www.pathvisio.org. Conclusion PathVisio is a graphical editor for biological pathways, with flexibility and ease of use as primary goals.
Details
- Language :
- English
- ISSN :
- 14712105
- Volume :
- 9
- Issue :
- 1
- Database :
- Directory of Open Access Journals
- Journal :
- BMC Bioinformatics
- Publication Type :
- Academic Journal
- Accession number :
- edsdoj.4bdd49105bcd41638f9bc4609b036e46
- Document Type :
- article
- Full Text :
- https://doi.org/10.1186/1471-2105-9-399