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prottest3 website  

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).

Environment Modules

Run module spider prottest3 to find out what environment modules are available for this application.

System Variables

  • HPC_PROTTEST3_DIR - installation directory
  • HPC_PROTTEST3_BIN - executable directory

Additional Information

This software requires GUI. See more: GUI Programs


If you publish research that uses prottest3 you have to cite it as follows:

Darriba D, Taboada GL, Doallo R, Posada D. ProtTest 3: fast selection of best-fit models of protein evolution. Bioinformatics, 27:1164-1165, 2011

In addition, given that ProtTest uses Phyml intensively, we encourage users to cite this program as well when using ProtTest:

Guindon S, Gascuel O. 2003. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol. 52: 696-704. Phyml