SMS: Smart Model Selection in PhyML

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ID: 291477
2017
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Abstract
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), is implemented in the PhyML environment and available using two interfaces: command-line (to be integrated in pipelines) and a web server (http://www.atgc-montpellier.fr/phyml-sms/).
Reference Key
openalex_W2610994034 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Vincent Lefort, Jean-Emmanuel Longueville, Olivier Gascuel
Journal molecular biology and evolution
Year 2017
DOI
10.1093/molbev/msx149
URL
https://academic.oup.com/mbe/article-pdf/34/9/2422/24367179/msx149.pdf
Keywords Keywords not found

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