Project Description
MLSTest is a Windows based software for the analysis of Multilocus Sequence Data for euckaryotic organisms

MLSTest is a novel Windows based software for multilocus sequence data analysis. It is aimed to work with diploid sequences but it is useful for haploid sequences too. It constructs allelic profiles and makes basic clustering analysis with them, calculates discriminatory power, typing efficiency and genotypic diversity. Additionally, includes tools for view, edit, convert and concatenate sequences. It uses several simple methods for tree construction (UPGMA, Neighbor Joining, Bio-Neighbor Joining, majority rule consensus) with the advantage of manage heterozygous sites. It calculates node support using bootstrap and NJ based clade significance using the templeton test that is faster than bootstrap. Additionally, the software analyzes if concatenation is suitable for the data set using different tests (bionj-incongruence length difference test, winning sites test). It evaluates how the incongruence is distributed across the tree using a variation of the localized incongruence length difference test approximated with a modified neighbor joining algorithm or using the winning sites test. MLSTest have tools to optimize and reduce MLST schemes, to select best loci for typing and analyzes whether extending the scheme will increase resolution. It calculates consensus networks and makes multidimensional scaling for visual clustering. Finally, it implements a user-friendly viewer for trees, eBurst and multidimensional scaling graphs that allows several editing options.

Last edited Aug 29, 2012 at 12:19 PM by nicotomasini, version 3