Testing statistical significance of random effect

pglmm_profile_LRT tests statistical significance of the phylogenetic random effect using profile likelihoods when bayes = F. The resulting p-values are conditional on the fixed estimates of the other parameters, in contrast to a standard likelihood ratio test.

pglmm_profile_LRT(x, re.number = 0, cpp = TRUE)

communityPGLMM.profile.LRT(x, re.number = 0, cpp = TRUE)

Arguments

x

A fitted model with class communityPGLMM with bayes = FALSE.

re.number

Which random term to test? Can be a vector with length >1.

cpp

Whether to use C++ function for optim. Default is TRUE. Ignored if bayes = TRUE.

Value

A list of likelihood, df, and p-value.