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Bioinformatics Advance Access published online on March 25, 2007
Bioinformatics, doi:10.1093/bioinformatics/btm095
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© The Author (2007). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

Ngila: Global Pairwise Alignments with Logarithmic and Affine Gap Costs

Reed A. Cartwright a,b,*

aDepartment of Genetics, University of Georgia, Athens, GA 30602-7223,
bCurrent Address: Bioinformatics Research Center, North Carolina State University, Campus Box7566, Raleigh, NC 27695-7566

*To whom correspondence should be addressed. Reed A. Cartwright, E-mail: racartwr{at}ncsu.edu


  Abstract

Summary: Ngila is an application that will find the best alignment of a pair of sequences using log-affine gap costs, which are the most biologically realistic gap costs.

Availability: Portable source code for Ngila can be downloaded from its development website, http://scit.us/projects/ngila/. It compiles on most operating systems.

Supplementary Information: Appendices

Associate Editor: Prof. John Quackenbush

Received on October 31, 2006; revised on February 12, 2007; accepted on March 7, 2007

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