In II[, ii] + REmat$codes[[i]] :
[cc'ing back to r-sig-mixed-models] A few things: * the basic problem is that you have NA values in your data: these get removed automatically in one place in the code and not in the other, hence the length mismatch. This is not absolutely trivial to fix automatically -- the fixed and random effect predictors are handled separately, and there may be extra variables in the data that should be disregarded completely -- but in the meantime I have at least put in an informative warning message in this case (for the next release). The simplest solution is to use na.omit() to get rid of these values (which can't be used in the fit anyway). * it's not advisable to fit a random effect to a factor with only three levels, although in this case it seems not to do anything disastrous (ADMB does issue one warning, although in this case it seems harmless) * for this problem glmer works *much* faster than glmmADMB (glmmADMB used to work faster, but we made it slower in the process of adapting it to be more general and flexible) -- about 2 seconds vs. 2 minutes on my computer. quasi-likelihood is unreliable (and no longer possible) in glmer, but you should check http://glmm.wikidot.com/faq for other alternatives for handling overdispersion [and for more on the previous point about numbers of levels of random effects] (although it is still true that glmmADMB allows a wider range of options than glmer) * the data set you sent didn't have a 'chi_hh' variable in it, only an 'ave_chi_hh' variable -- I used it instead for the fitting. *However*, ave_chi_hh is not integer-valued. Unless you're absolutely sure you know what you're doing, you shouldn't use a Poisson GLMM to fit non-integer data. (I'm adding a test and a warning for this too.) library(glmmADMB) ## best not to call data 'data', this masks a built-in R function ddat <- read.csv("dottisani_data.csv") summary(ddat) ddat <- na.omit(ddat) library(lme4) t1 <- system.time(g1 <- glmer(ave_chi_hh ~ age + educ +(1 |country_y), data=ddat, family="poisson")) t2 <- system.time(g2 <- glmmadmb(ave_chi_hh ~ age + educ +(1 |country_y), data=ddat, family="poisson"))
On 12-01-13 01:08 PM, Giulia Dotti Sani wrote:
Hello and thanks for the answer I'm attaching a subset of the data I'm using. I was using lmer, but I moved to glmm to tackle overdispersion, since I've been reading that the quasipoisson families for lmer are not reliable. thank you Giulia
sessionInfo()
R version 2.14.1 (2011-12-22) Platform: i386-pc-mingw32/i386 (32-bit) locale: [1] LC_COLLATE=Italian_Italy.1252 LC_CTYPE=Italian_Italy.1252 [3] LC_MONETARY=Italian_Italy.1252 LC_NUMERIC=C [5] LC_TIME=Italian_Italy.1252 attached base packages: [1] splines stats graphics grDevices utils datasets methods [8] base other attached packages: [1] glmmADMB_0.7.2 R2admb_0.7.5 car_2.0-11 survival_2.36-10 [5] nnet_7.3-1 foreign_0.8-48 arm_1.4-14 abind_1.4-0 [9] R2WinBUGS_2.1-18 coda_0.14-6 MASS_7.3-16 lmtest_0.9-29 [13] zoo_1.7-6 lme4_0.999375-42 Matrix_1.0-2 lattice_0.20-0 loaded via a namespace (and not attached): [1] grid_2.14.1 nlme_3.1-102 stats4_2.14.1 tools_2.14.1 On Fri, Jan 13, 2012 at 6:35 PM, Ben Bolker <bbolker at gmail.com> wrote:
Giulia Dotti Sani <giulia.dottisani at ...> writes:
I'm running the following poisson and I keep getting the same error. M01 <- glmmadmb(chi_hh ~ age_m + educ +(1 |country_y), data=data, family="poisson") In II[, ii] + REmat$codes[[i]] : longer object length is not a multiple of shorter object length I think it has to do with the grouping variable but I don't see what's the problem.
Not reproducible ... post the data somewhere or send them to me? Results of sessionInfo() please (i.e. what version of glmmADMB are you using?) For what it's worth, for this problem you could also use glmer, which might be faster. glmmADMB really comes into its own for extended models (zero-inflated or truncated, negative binomial, Beta, etc.) that glmer can't handle. Ben Bolker
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