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jModelTest: phylogenetic model averaging.

Authors
Type
Published Article
Journal
Molecular Biology and Evolution
1537-1719
Publisher
Oxford University Press
Publication Date
Volume
25
Issue
7
Pages
1253–1256
Identifiers
DOI: 10.1093/molbev/msn083
PMID: 18397919
Source
Medline

Abstract

jModelTest is a new program for the statistical selection of models of nucleotide substitution based on "Phyml" (Guindon and Gascuel 2003. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol. 52:696-704.). It implements 5 different selection strategies, including "hierarchical and dynamical likelihood ratio tests," the "Akaike information criterion," the "Bayesian information criterion," and a "decision-theoretic performance-based" approach. This program also calculates the relative importance and model-averaged estimates of substitution parameters, including a model-averaged estimate of the phylogeny. jModelTest is written in Java and runs under Mac OSX, Windows, and Unix systems with a Java Runtime Environment installed. The program, including documentation, can be freely downloaded from the software section at http://darwin.uvigo.es.

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