[ADMB Users] ICC calculation in glmmADMB R package

[Rafael Mares]

Is test2$S what you are looking for? I think it is similar to (or the
same as?) VarCorr() but for glmm.ADMB models.


--
Rafael Mares
Large Animal Research Group (LARG)
Department of Zoology
University of Cambridge
Downing Street
Cambridge
CB2 3EJ



On 13 September 2011 09:33, Sen Li <sen.li at uclouvain.be> wrote:
> Dear Ben,
>
> Thanks for the reply. I tried VarCorr() before, but it turned out to be
> inapplicable with gimm.ADMB objects.
>
> Here follows the outputs of my model, of VarCorr(), and of sessionInfo():
>
>> print(test2,sd_S_print=T)
>
> GLMM's in R powered by AD Model Builder:
>
>   Family: nbinom
>   alpha = 1.0808
>
> Fixed effects:
>   Log-likelihood: -690.741
>   AIC: 1395.482
>   Formula: y ~ x1 + x2 + x3
>  (Intercept)           x1                x2                    x3
>    11.048000    -0.025435   -45.852000    -0.061126
>
> Random effects:
>   Grouping factor: Scode
>   Formula: ~1
> Structure: Diagonal matrix
> (Intercept)
>    1.275421
>
> Covariance matrix of random effects vector (left) and corresponding standard
> deviations (right):
>
>             (Intercept)     (Intercept)
> (Intercept)      1.6267         0.77551
>
> Note: The diagonal elements of the above left matrix are variances, NOT
> std's.
>
> Number of Observations: 125
> Number of Groups: 51
>> VarCorr(test2)
> Erreur dans UseMethod("VarCorr") :
>   pas de méthode pour 'VarCorr' applicable pour un objet de classe
> "glmm.admb" ## the method is not applicable to an object of class
> "glmm.admb"##
>> sessionInfo()
> R version 2.13.0 (2011-04-13)
> Platform: x86_64-pc-mingw32/x64 (64-bit)
>
> locale:
> [1] LC_COLLATE=French_Belgium.1252  LC_CTYPE=French_Belgium.1252
> [3] LC_MONETARY=French_Belgium.1252 LC_NUMERIC=C
> [5] LC_TIME=French_Belgium.1252
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> other attached packages:
> [1] nlme_3.1-101   glmmADMB_0.5-2 MASS_7.3-12
>
> loaded via a namespace (and not attached):
> [1] grid_2.13.0     lattice_0.19-23 tools_2.13.0
>>
>
> I'd appreciate any further help.
>
> Best,
> Sen
>
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