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Bioinformatics. 2009 Jun 15;25(12):1554-5. doi: 10.1093/bioinformatics/btp255. Epub 2009 Apr 15.

MapView: visualization of short reads alignment on a desktop computer.

Author information

1
State Key Laboratory of Biocontrol and Key Laboratory of Gene Engineering of Ministry of Education, School of Life Sciences, Sun Yat-Sen University, Guangzhou, China. baohua100@hotmail.com

Abstract

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/.

SUPPLEMENTARY INFORMATION:

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

PMID:
19369497
DOI:
10.1093/bioinformatics/btp255
[Indexed for MEDLINE]

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