ProtTest is a bioinformatic tool for the selection of best-fit models of aminoacid replacement for the data at hand. ProtTest makes this selection by finding the model in the candidate list with the smallest Akaike Information Criterion (AIC), Bayesian Information Criterion (BIC) score or Decision Theory Criterion (DT). At the same time, ProtTest obtains model-averaged estimates of different parameters (including a model-averaged phylogenetic tree) and calculates their importance(Posada and Buckley 2004). ProtTest differs from its nucleotide analog jModeltest (Posada 2008) in that it does not include likelihood ratio tests, as not all models included in ProtTest are nested.
Phylogenomics Group at the University of Vigo
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Darriba D, Taboada GL, Doallo R, Posada D.
ProtTest 3: fast selection of best-fit models of protein evolution.
Bioinformatics (2011)doi: 10.1093/bioinformatics/btr088