SMS: Smart Model Selection in PhyML.
Ontology highlight
ABSTRACT:
SUBMITTER: Lefort V
PROVIDER: S-EPMC5850602 | biostudies-literature | 2017 Sep
REPOSITORIES: biostudies-literature
Publications
SMS: Smart Model Selection in PhyML.
Lefort Vincent V Longueville Jean-Emmanuel JE Gascuel Olivier O
Molecular biology and evolution 20170901 9
Model selection using likelihood-based criteria (e.g., AIC) is one of the first steps in phylogenetic analysis. One must select both a substitution matrix and a model for rates across sites. A simple method is to test all combinations and select the best one. We describe heuristics to avoid these extensive calculations. Runtime is divided by ∼2 with results remaining nearly the same, and the method performs well compared with ProtTest and jModelTest2. Our software, "Smart Model Selection" (SMS), ...[more]
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