Predicted values for GLMMs fitted with MCMCglmm
# S3 method for MCMCglmm
predict(object, newdata=NULL, marginal=object$Random$formula,
type="response", interval="none", level=0.95, it=NULL,
posterior="all", verbose=FALSE, approx="numerical", …)an object of class "MCMCglmm"
An optional data frame in which to look for variables with which to predict
formula defining random effects to be maginalised
character; either "terms" (link scale) or "response" (data scale)
character; either "none", "confidence" or "prediction"
A numeric scalar in the interval (0,1) giving the target probability content of the intervals.
integer; optional, MCMC iteration on which predictions should be based
character; if it is NULL should marginal posterior predictions be calculated ("all"), or should they be made conditional on the marginal posterior means ("mean") of the parameters, the posterior modes ("mode"), or a random draw from the posterior ("distribution").
logical; if TRUE, warnings are issued with newdata when the original model has fixed effects that do not appear in newdata and/or newdata has random effects not present in the original model.
character; for distributions for which the mean cannot be calculated analytically what approximation should be used: numerical integration (numerical; slow), second order Taylor expansion (taylor2) and for logistic models approximations presented in Diggle (2004) (diggle) and McCulloch and Searle (2001) (mcculloch)
Further arguments to be passed
Expectation and credible interval
Diggle P, et al. (2004). Analysis of Longitudinal Data. 2nd Edition. Oxford University Press.
McCulloch CE and Searle SR (2001). Generalized, Linear and Mixed Models. John Wiley & Sons, New York.