Feb 28, 2004

TOPALi: software for automatic identification of recombinant sequences within DNA multiple alignments

Bioinformatics
Iain MilneGràinne McGuire

Abstract

TOPALi is a new Java graphical analysis application that allows the user to identify recombinant sequences within a DNA multiple alignment (either automatically or via manual investigation). TOPALi allows a choice of three statistical methods to predict the positions of breakpoints due to past recombination. The breakpoint predictions are then used to identify putative recombinant sequences and their relationships to other sequences. In addition to its sophisticated interface, TOPALi can import many sequence formats, estimate and display phylogenetic trees and allow interactive analysis and/or automatic HTML report generation. TOPALi is freely available from http://www.bioss.ac.uk/software.html

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Mentioned in this Paper

Computer Graphics
Recombination, Genetic
Phylogeny
Computer Programs and Programming
Programming Languages
Other Sequences
Sequence Determinations, DNA
Recombinants
Virtual Systems
DNA, A-Form

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