PHYML Online--a web server for fast maximum likelihood-based phylogenetic inference

doi:10.1093/nar/gki352

. 2005 Jul 1;33(Web Server issue):W557-9.

doi: 10.1093/nar/gki352.

PHYML Online--a web server for fast maximum likelihood-based phylogenetic inference

Stéphane Guindon ¹, Franck Lethiec , Patrice Duroux , Olivier Gascuel

Affiliations

PMID: 15980534
PMCID: PMC1160113
DOI: 10.1093/nar/gki352

PHYML Online--a web server for fast maximum likelihood-based phylogenetic inference

Stéphane Guindon et al. Nucleic Acids Res. 2005.

. 2005 Jul 1;33(Web Server issue):W557-9.

doi: 10.1093/nar/gki352.

Authors

Stéphane Guindon ¹, Franck Lethiec , Patrice Duroux , Olivier Gascuel

Affiliation

¹ Bioinformatics Institute and Allan Wilson Centre, University of Auckland Private Bag 92019, Auckland, New Zealand.

PMID: 15980534
PMCID: PMC1160113
DOI: 10.1093/nar/gki352

Abstract

PHYML Online is a web interface to PHYML, a software that implements a fast and accurate heuristic for estimating maximum likelihood phylogenies from DNA and protein sequences. This tool provides the user with a number of options, e.g. nonparametric bootstrap and estimation of various evolutionary parameters, in order to perform comprehensive phylogenetic analyses on large datasets in reasonable computing time. The server and its documentation are available at http://atgc.lirmm.fr/phyml.

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Figures

Figure 1

Figure 1

The PHYML Online interface.

See this image and copyright information in PMC

References

1. Rannala B., Yang Z. Probability distribution of molecular evolutionary trees: a new method of phylogenetic inference. J. Mol. Evol. 1996;43:304–311. - PubMed
1. Huelsenbeck J.P., Ronquist F. MrBayes: Bayesian inference of phylogeny. Bioinformatics. 2001;17:754–755. - PubMed
1. Salter L., Pearl D. Stochastic search strategy for estimation of maximum likelihood phylogenetic trees. Syst. Biol. 2001;50:7–17. - PubMed
1. Lewis P. A genetic algorithm for maximum likelihood phylogeny inference using nucleotide sequence data. Mol. Biol. Evol. 1998;15:277–283. - PubMed
1. Lemmon A., Milinkovitch M. The metapopulation genetic algorithm: an efficient solution for the problem of large phylogeny estimation. Proc. Natl Acad. Sci. USA. 2002;99:10516–10521. - PMC - PubMed

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[1] Rannala B., Yang Z. Probability distribution of molecular evolutionary trees: a new method of phylogenetic inference. J. Mol. Evol. 1996;43:304–311. - PubMed

[2] Rannala B., Yang Z. Probability distribution of molecular evolutionary trees: a new method of phylogenetic inference. J. Mol. Evol. 1996;43:304–311. - PubMed

[3] Huelsenbeck J.P., Ronquist F. MrBayes: Bayesian inference of phylogeny. Bioinformatics. 2001;17:754–755. - PubMed

[4] Huelsenbeck J.P., Ronquist F. MrBayes: Bayesian inference of phylogeny. Bioinformatics. 2001;17:754–755. - PubMed

[5] Salter L., Pearl D. Stochastic search strategy for estimation of maximum likelihood phylogenetic trees. Syst. Biol. 2001;50:7–17. - PubMed

[6] Salter L., Pearl D. Stochastic search strategy for estimation of maximum likelihood phylogenetic trees. Syst. Biol. 2001;50:7–17. - PubMed

[7] Lewis P. A genetic algorithm for maximum likelihood phylogeny inference using nucleotide sequence data. Mol. Biol. Evol. 1998;15:277–283. - PubMed

[8] Lewis P. A genetic algorithm for maximum likelihood phylogeny inference using nucleotide sequence data. Mol. Biol. Evol. 1998;15:277–283. - PubMed

[9] Lemmon A., Milinkovitch M. The metapopulation genetic algorithm: an efficient solution for the problem of large phylogeny estimation. Proc. Natl Acad. Sci. USA. 2002;99:10516–10521. - PMC - PubMed

[10] Lemmon A., Milinkovitch M. The metapopulation genetic algorithm: an efficient solution for the problem of large phylogeny estimation. Proc. Natl Acad. Sci. USA. 2002;99:10516–10521. - PMC - PubMed

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PHYML Online--a web server for fast maximum likelihood-based phylogenetic inference

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PHYML Online--a web server for fast maximum likelihood-based phylogenetic inference

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Abstract

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