starting values in glmmadmb and / or covariance specification in glmer
Dear list members, Does anybody know either how to use starting values for the variance components using glmmadmb (glmmADMB package) or how I can specify a common covariance across different variances for the random statement with glmer (NOT with lmer that seems to work differently)? Sorry for asking two different questions, but an answer to only one would already help me. Presently, I keep running out of memory (8GB) when trying to fit a set of binary GLMMs with binomial error distribution using glmmadmb that I cannot specify in glmer (which doesn't have any memory problems). Maybe specifying starting values in glmmadmb would help? I can fit all of a set of models with PQL (asreml-r package), but only some with Laplace approximation (what I want) using glmer (lme4 package). Hence, it is possible to fit the models generally. But I have no clue how to specify a certain covariance structure in glmer (common covariance + diagonal, equal variance). I tried the following models with both glmer and glmmadmb; both work fine: a) ~ 1 + Fixed.Effects + (1|Group) + (1|Fixed.Effect:Group) # simplest model; common covariance (fitted by the Group term that is crossed with Fixed.Effect) & common variance between / for all levels of Fixed.Effect by Group b) ~ 1 + Fixed.Effects + (0+Fixed.Effect|Group) # maximal model; different covariance & different variance between / for all levels of Fixed.Effect by Group levels However, an intermediate model specification results in different covariance structures in glmmadmb (where I run out of memory; I tested its correct behaviour with a subset of data) vs. glmer: c) ~ 1 + Fixed.Effects + (1|Group) + (0+Fixed.Effect|Group) # I try to fit: a common covariance among levels of Fixed.Effect by Group, different Group variances for each level of Fixed.Effect The asreml-r syntax for the model I try to specify in c) is: fixed = ~ 1 + Fixed.Effects, random = ~ Group + idh(Fixed.Effects):Group or alternatively (I'm not particularly interested in the amount of variance for the crossed Group term, just in inferences about fixed effects): random = ~ corh(Fixed.Effects):Group For c), glmmadmb and I understand each other - no covariances are fit among Fixed.Effect by Group levels in addition to that implied by the Group random term - whereas proper glmer syntax must be different as it fits BOTH individual-pair covariances (printed as correlations with 'summary') AND the random term variance (I'm far away from wanting to fit this). How do I specify model c) appropriately in glmer or how do I specify starting values in glmmadmb (to get rid of my memory-limitation problem instead of learning new glmer syntax)? Many thanks in advance, Paul
Paul Debes DFG Research Fellow University of Turku Department of Biology It?inen Pitk?katu 4 20520 Turku Finland