I want to run a multinomial mixed effects model with the glmmADMB package of R. I have read the available information of the programm but i couldn't find which family or link has to be used for multinomial data. In the examples are only shown models with Poisson, negative binomial and truncated binomial /poisson families.
Use of this package for multinomial mixed models has already been published (http://www.sciencedirect.com/science/article/pii/S0378112715007288).
Thanks a lot in advance for your answers.
Ana
Best Answer
You can code a multinomial model as a variation on a binomial model and use the 'logit' link.
http://www.ats.ucla.edu/stat/r/dae/mlogit.htm
http://www.r-bloggers.com/how-to-multinomial-regression-models-in-r/
To handle multinomial models without recoding, you can use the MCMCglmm package. See the answer to a similar question here.