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Nucleic Acids Research 2006 34(Web Server issue):W632-W634; doi:10.1093/nar/gkl080
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© The Author 2006. Published by Oxford University Press. All rights reserved
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions@oxfordjournals.org

Article

PDA v.2: improving the exploration and estimation of nucleotide polymorphism in large datasets of heterogeneous DNA

Sònia Casillas and Antonio Barbadilla*

Departament de Genètica i de Microbiologia, Universitat Autònoma de Barcelona 08193 Bellaterra (Barcelona), Spain

*To whom correspondence should be addressed. Tel: +34 935 812 730; Fax: +34 935 812 387; Email: Antonio.Barbadilla{at}uab.es

Received February 14, 2006. Revised March 3, 2006. Accepted March 3, 2006.

Pipeline Diversity Analysis (PDA) is an open-source, web-based tool that allows the exploration of polymorphism in large datasets of heterogeneous DNA sequences, and can be used to create secondary polymorphism databases for different taxonomic groups, such as the Drosophila Polymorphism Database (DPDB). A new version of the pipeline presented here, PDA v.2, incorporates substantial improvements, including new methods for data mining and grouping sequences, new criteria for data quality assessment and a better user interface. PDA is a powerful tool to obtain and synthesize existing empirical evidence on genetic diversity in any species or species group. PDA v.2 is available on the web at http://pda.uab.es/.


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