Utility functions returning named character vector of the model class-names for the default model types used for PCM and MixedGaussian model construction.
MGPMDefaultModelTypes return a character string vector with
named elements (A,B,C,D,E,F) defined as follows
(Mitov et al. 2019a):
BM (H = 0, diagonal \(\Sigma\)): BM, uncorrelated traits.
BM (H = 0, symmetric \(\Sigma\)): BM, correlated traits.
OU (diagonal H, diagonal \(\Sigma\)): OU, uncorrelated traits.
OU (diagonal H, symmetric \(\Sigma\)): OU, correlated traits, but simple (diagonal) selection strength matrix.
OU (symmetric H, symmetric \(\Sigma\)): An OU with nondiagonal symmetric H and nondiagonal symmetric \(\Sigma\).
OU (asymmetric H, symmetric \(\Sigma\)): An OU with nondiagonal asymmetric H and nondiagonal symmetric \(\Sigma\).
The only difference between the two functions is that the model
types returned by
PCMFDefaultModelTypes have a global
parameter X0, while the model types returned by
MGPMFDefaultModelTypes have an omitted parameter X0.
[Mitov et al. 2019a] Mitov, V., Bartoszek, K., & Stadler, T. (2019). Automatic generation of evolutionary hypotheses using mixed Gaussian phylogenetic models. Proceedings of the National Academy of Sciences of the United States of America, 35, 201813823. http://doi.org/10.1073/pnas.1813823116