DRAxML@home: A distributed program for computation of large phylogenetic trees

Future Generation Computer Systems

Volumn 21, Issue 5, 2005, Pages 725-730

  Stamatakis, Alexandros ^a   Lindermeier, Markus ^a   Ott, Michael ^a   Ludwig, Thomas ^b   Meier, Harald ^a  

^a TECHNICAL UNIVERSITY OF MUNICH   (Germany)

^b UNIVERSITY OF HEIDELBERG   (Germany)

Author keywords

Distributed computing; High performance bioinformatics; Maximum likelihood method; Phylogenetic tree inference

Indexed keywords

ALGORITHMS; HEURISTIC METHODS; MATHEMATICAL MODELS; MAXIMUM LIKELIHOOD ESTIMATION; OPTIMIZATION; RESOURCE ALLOCATION; STATISTICAL METHODS; SUPERCOMPUTERS; TOPOLOGY;

DISTRIBUTED COMPUTING; DISTRIBUTED RANDOMIZED AXELERATED MAXIMUM LIKLIHOOD (DRAXML); HIGH PERFORMANCE BIOINFORMATICS; PHYLOGENETIC TREE INFERENCE;

TREES (MATHEMATICS);

EID: 17644401735     PISSN: 0167739X     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.future.2004.05.013     Document Type: Conference Paper

References (13)

1. J. Felsenstein Evolutionary trees from DNA sequences: a maximum likelihood approach J. Mol. E 17 1981 368
2. S. Guindon, and O. Gascuel A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood Syst. Biol. 52 2003 696
3. J.P. Huelsenbeck, and F. Ronquist MRBAYES: Bayesian inference of phylogenetic trees Bioinformatics 17 2001 754
4. G. Olsen fastdnaml: a tool for construction of phylogenetic trees of DNA sequences using maximum likelihood Comput. Appl. Biosci. 10 1994 41
5. PAUP: paup.csit.fsu.edu, visited May 2003.
6. PHYLIP: evolution.genetics.washington.edu, visited November 2003.
7. RRZE: www.rrze.uni-erlangen.de, visited October 2003.
8. Seti@home: setiathome.ssl.berkeley.edu, visited July 2003.
9. Q. Snell, et al., Parallel phylogenetic inference, Proceedings of Supercomputing Conference 2000, Dallas, Texas, USA, 2000.
10. A. Stamatakis, et al., New fast and accurate heuristics for inference of large phylogenetic trees, Proceedings of IPDPS2004, Santa Fe, New Mexico, USA, 2004. Sequential open source code and paper available online at: www.bode.cs.tum.edu/stamatak.
11. K. Strimmer, and A.v. Haeseler Quartet puzzling: a maximum-likelihood Method for reconstructing tree topologies Mol. Biol. E 13 1996 964
12. T.L. Williams, B.M.E. Moret, An investigation of phylogenetic likelihood methods, Proceedings of BIBE'03, Bethesda, Maryland, USA (2003) 79-86.
13. C. Tuffley, and M. Steel Links between maximum likelihood and maximum parsimony under a simple model of site substitution Bull. Math. Biol. 59 1997 581