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GenomeVISTA--an integrated software package for whole-genome alignment and visualization.
Alexandre Poliakov1, Justin Foong1, Michael Brudno2
1US Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598, USA, Centre for Computational Medicine, Hospital for Sick Children, Toronto, ON M5G 1X8 Canada, Department of Computer Science, University of Toronto, Toronto, ON M5S 3G4 Canada and Genomics Division, LBNL, Berkeley, CA 94720, USA.
Bioinformatics (Oxford, England)
|May 27, 2014
Summary
GenomeVISTA offers a novel, stand-alone software package for whole-genome alignment and visualization. This tool provides efficient, accurate comparative genomics analysis for researchers needing local data processing.
Area of Science:
- Genomics
- Bioinformatics
Background:
- The increasing availability of complete genome assemblies necessitates efficient whole-genome alignment tools.
- The VISTA family of tools is a standard for comparative genomics analysis, widely used by the biomedical community.
- Existing VISTA programs are primarily web-accessible servers.
Purpose of the Study:
- To introduce GenomeVISTA, a novel stand-alone software package.
- To integrate key features of the VISTA family into a flexible and secure local application.
- To provide researchers with enhanced capabilities for whole-genome comparisons on their own computers.
Main Methods:
- GenomeVISTA is a novel implementation incorporating VISTA family features.
- It offers fast and accurate alignment algorithms.
- Includes visualization capabilities, a graphical user interface (GUI), and analytical tools.
Main Results:
- GenomeVISTA provides a stand-alone software package for whole-genome alignment and visualization.
- It integrates features of the VISTA family, including alignment, GUI, and analytical tools.
- Offers flexibility and security for local whole-genome comparisons.
Conclusions:
- GenomeVISTA enhances comparative genomics by offering a comprehensive, stand-alone solution.
- The software provides efficient and user-friendly whole-genome alignment and visualization.
- It empowers researchers to conduct sensitive genomic analyses on their local systems.
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