F. Abascal, R. Zardoya, and D. Posada, ProtTest: selection of best-fit models of protein evolution, Bioinformatics, vol.21, issue.9, pp.2104-2105, 2005.

H. Akaike, Information theory and an extension of the maximum likelihood principle, Second international symposium on information theory, pp.267-281, 1973.

L. Arbiza, M. Patricio, H. Dopazo, and D. Posada, Genome-wide heterogeneity of nucleotide substitution model fit, Genome Biol Evol, vol.3, pp.896-908, 2011.

D. Darriba, G. L. Taboada, R. Doallo, and D. Posada, jModelTest 2: more models, new heuristics and parallel computing, Nat Methods, vol.9, issue.8, p.772, 2012.

O. Gascuel, BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data, Mol Biol Evol, vol.14, issue.7, pp.685-695, 1997.
URL : https://hal.archives-ouvertes.fr/lirmm-00730410

S. Guindon, J. F. Dufayard, V. Lefort, M. Anisimova, W. Hordijk et al., New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0, Syst Biol, vol.59, issue.3, pp.307-321, 2010.
URL : https://hal.archives-ouvertes.fr/lirmm-00511784

S. Q. Le and O. Gascuel, An improved general amino acid replacement matrix, Mol Biol Evol, vol.25, issue.7, pp.1307-1320, 2008.
URL : https://hal.archives-ouvertes.fr/lirmm-00324106

D. Posada and K. A. Crandall, MODELTEST: testing the model of DNA substitution, Bioinformatics, vol.14, issue.9, pp.817-818, 1998.

G. Schwarz, Estimating the dimension of a model, Ann Stat, vol.6, pp.461-464, 1978.