Abstract

Abstract Summary: TREE-PUZZLE is a program package for quartet-based maximum-likelihood phylogenetic analysis (formerly PUZZLE, Strimmer and von Haeseler, Mol. Biol. Evol. , 13, 964–969, 1996) that provides methods for reconstruction, comparison, and testing of trees and models on DNA as well as protein sequences. To reduce waiting time for larger datasets the tree reconstruction part of the software has been parallelized using message passing that runs on clusters of workstations as well as parallel computers. Availability: http://www.tree-puzzle.de. The program is written in ANSI C. TREE-PUZZLE can be run on UNIX, Windows and Mac systems, including Mac OS X. To run the parallel version of PUZZLE, a Message Passing Interface (MPI) library has to be installed on the system. Free MPI implementations are available on the Web (cf. http://www.lam-mpi.org/mpi/implementations/). Contact: hschmidt@molgen.mpg.de; haeseler@eva.mpg.de * To whom correspondence should be addressed.

Keywords

Computer scienceTree (set theory)Parallel computingWorkstationMessage Passing InterfaceUnixOS XMessage passingImplementationOperating systemPhylogenetic treeMac OSSoftwareInterface (matter)Theoretical computer scienceProgramming languageMathematicsCombinatoricsBiology

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Publication Info

Year
2002
Type
article
Volume
18
Issue
3
Pages
502-504
Citations
2549
Access
Closed

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Heiko A. Schmidt, Korbinian Strimmer, Martin Vingron et al. (2002). TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics , 18 (3) , 502-504. https://doi.org/10.1093/bioinformatics/18.3.502

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DOI
10.1093/bioinformatics/18.3.502