Journal Article

SimMLST: simulation of multi-locus sequence typing data under a neutral model

Xavier Didelot, Daniel Lawson and Daniel Falush

in Bioinformatics

Volume 25, issue 11, pages 1442-1444
Published in print June 2009 | ISSN: 1367-4803
Published online March 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp145
SimMLST: simulation of multi-locus sequence typing data under a neutral model

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Summary: Multi-locus sequence typing (MLST) is a widely used method of characterization of bacterial isolates. It has been applied to over 50 000 isolates in over 50 different species. Here, we present a coalescent method to jointly simulate MLST data and the clonal genealogy that gave rise to the sample.

Availability and Implementation: SimMLST was implemented in C++and Qt4 for the graphical user interface. It is distributed under the terms of the GNU General Public License. Source code and binaries for Windows and Linux are available from http://go.warwick.ac.uk/SimMLST. A user guide and a technical description of the algorithm are provided with the program.

Contact: X.Didelot@warwick.ac.uk

Journal Article.  1465 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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