Log-likelihoods for evolutionary models

Returns log-likelihood for an Ornstein-Uhlenbeck model where the optimum evolves as a Unbiased Random Walk. The movement of the optimum is not parameterized based on separate data.

Usage

logL.joint.OU.BM(p, y, opt.anc)

Arguments

p

parameters of the model to be optimized

y

a paleoTS object

opt.anc

logical, indicating if the ancestral trait value is at the optimum (TRUE) or displaced from the optimum (FALSE)

Value

The log-likelihood of the parameter estimates, given the data.

Details

In general, users will not be access these functions directly, but instead use the optimization functions, which use these functions to find the best-supported parameter values.

References

Hansen, T. F., Pienaar, J. & Orzack, S. H. A Comparative Method for Studying Adaptation to a Randomly Evolving Environment. Evolution 62, 1965–1977 (2008).

Author

Kjetil Lysne Voje