Skip Navigation


Bioinformatics Advance Access originally published online on April 15, 2009
Bioinformatics 2009 25(12):1554-1555; doi:10.1093/bioinformatics/btp255
This Article
Right arrow Full Text
Right arrow Full Text (Print PDF)
Right arrow All Versions of this Article:
25/12/1554    most recent
btp255v1
Right arrow Comments: Submit a response
Right arrow Alert me when this article is cited
Right arrow Alert me when Comments are posted
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Bao, H.
Right arrow Articles by Shi, S.
PubMed
Right arrow PubMed Citation
Right arrow Articles by Bao, H.
Right arrow Articles by Shi, S.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© The Author 2009. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

MapView: visualization of short reads alignment on a desktop computer

Hua Bao 1,{dagger},*, Hui Guo 1,{dagger}, Jinwei Wang 2, Renchao Zhou 1, Xuemei Lu 1 and Suhua Shi 1,*

1State Key Laboratory of Biocontrol and Key Laboratory of Gene Engineering of Ministry of Education, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275 and 2School of Manufacturing Science and Engineering, Sichuan University, Chengdu 610064, China

*To whom correspondence should be addressed.


  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: baohua100{at}hotmail.com; lssssh{at}mail.sysu.edu.cn

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

{dagger}The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First authors.

Associate Editor: Joaquin Dopazo

Received on March 10, 2009; revised on April 8, 2009; accepted on April 8, 2009

Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?




Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.