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Bioinformatics

Year: 2009  |  Volume: 25  |  Issue: 12  |  Page No.: 1554 - 1555

MapView: visualization of short reads alignment on a desktop computer

H Bao, H Guo, J Wang, R Zhou, X Lu and S. Shi

Abstract

Summary: We introduce a new visual analytics tool named MapView to facilitate the representation of large-scale short reads alignment data and genetic variation analysis. MapView can handle hundreds of millions of short reads on a desktop computer with limited memory. It supports a compact alignment view for both single-end and paired end short reads, multiple navigation and zoom modes and multi-thread processing. Moreover, MapView offers automated genetic variation detection. MapView has been used in our lab and by over 10 research labs worldwide.

Availability: http://evolution.sysu.edu.cn/mapview/.

Contact: [email protected]; [email protected]

Supplementary information: Supplementary data are available at http://evolution.sysu.edu.cn/mapview/MVF.pdf

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