search for: glmmadmb

Hello everybody, I am using glmmADMB and when I run some models, I recieve the following message: Erro em glmmadmb(eumencells ~ 1 + (1 | owners), data = pred3, family = "nbinom", : The function maximizer failed (couldn't find STD file) Furthermore: Lost warning messages: Command execution 'C:\Windows\system32\cmd....

Dear all, I am having some problems trying to run a GLMM model with zero-inflation using the alpha version of glmmADMB (0.6.4) using R (2.13.1) in Windows and I would greatly appreciate some help. My count response variable (number of birds: count) fits a negative binomial distribution and the explanatory variables are both continuous and categorical (species= 17). The three random effects are site (68 of them), s...

After copy and pasting the code for installation of glmmADMB package suggested at http://glmmadmb.r-forge.r-project.org/, I receive this message. > install.packages("glmmADMB", repos="http://r-forge.r-project.org",type="source") Warning message: In getDependencies(pkgs, dependencies, available, lib) : package 'glmmADMB...

...(these are the R-forge build arguments, according to the r-forge admins) -- I've tried it with R-devel on Linux-32 and R 2.14.2 on MacOS-64. The build log (basically identical across linux64/win64/macos64) is as follows: -------------- Thu Mar 29 20:15:21 2012: Building tarball for package glmmADMB (SVN revision 204) using R version 2.14.2 (2012-02-29) ... * checking for file 'glmmADMB/DESCRIPTION' ... OK * preparing 'glmmADMB': * checking DESCRIPTION meta-information ... OK * checking for LF line-endings in source and make files * checking for empty or unneeded directories *...

Hi there, I am new to the package glmmadmb, but need it to perform a zero-inflated gzlmm with a binomial error structure. I can't seem to get it to work without getting some strange error messages. I am trying to find out what is affecting the number of seabird calls on an array of recorders placed at 4 sites on 6 islands. I have nig...

Greetings glmmADMB function users, I am trying to run a series of models using the glmmADMB function with several different distribution families (e.g., poisson, negbinom). I am using a Optiplex 790 PC with Windows 7, 16.0 GB of RAM and a 64-bit operating system. I am running R version 2.15.0 and started out using...

Dear R-users, Half a year ago we put out the R package "glmmADMB" for fitting overdispersed count data. http://otter-rsch.com/admbre/examples/glmmadmb/glmmADMB.html Several people who used this package have requested additional features. We now have a new version ready. The major new feature is that glmmADMB allows Bernoulli responses with logistic and pr...

library(glmmADMB) #Example for glmm.admb data(epil2) glmm.admb(y~Base*trt+Age +Visit,random=~Visit,group="subject",data=epil2,family="nbinom") Gives: Error in glmm.admb(y ~ Base * trt + Age + Visit, random = ~Visit, group = "subject", : The function maximizer failed **********...

...9;s nothing immediately obvious about the problem with the fit (the warnings and errors are about a "non-positive-definite Hessian", which usually means an overfitted/poorly identified model) -- still working on whether there's a way to get more useful information. As it turns out, glmmADMB's default behavior in this case is to just stop with an error. I could re-write things to allow it to tell you something (but it wouldn't be able to compute standard errors on the parameters). It's conceivable that you might get slightly different results (different enough that it wo...

Dear List, Some of you have been following the discussion of the GPL and its inclusion in the glmmADMB package we created for R users. I would like to provide a bit of background and include an email we received from Prof. Ripley so that everyone can be aware of how some might use the GPL to try to force access to proprietary software. I think this is interesting because many have voiced the opini...

Dear R-users, Earlier this year I posted a message to this list regarding negative binomial mixed models in R. It was suggested that the program I had written should be turned into an R-package. This has now been done, in collaboration with David Fournier and Anders Nielsen. The R-package glmmADMB provides the following GLMM framework: - Negative binomial or Poisson responses. - Zero-inflation (optionally), e.g. a mixture of a Poisson or negative binomial distribution and a point mass at zero. The computational method is based on the Laplace approximation for integrating out the ra...

The freely available R package glmmADMB can do Adaptive Gaussian Quadrature for this type of model, since it is built using AD Model Builder's random effects module which incorporates this feature. There is now a beta version of the software for people using R on the Mac intel platform. http://otter-rsch.com/admbre/examples/glmmadm...

dear R-users, I have to model counts where all counts above some threshold have been censored. In the same dataset I have too many zeroes for a Poisson or even a negative binomial distribution to make sense, so I would need a zero-inflated-censored negative binomial family for use in glmer (or glmmADMB?). That seems not to exist. my question is : how could I add a custom-built family of distributions that I could call in glmer/glmmADMM ? if it's not possible, I am considering imputing fake values to replace the censored ones, but I am unsure whether this is bad or very bad... Eric Elguero...

R glmmADMB question I am trying to use glmm.admb (the latest alpha version from the R forge website 0.6.4) to model my count data that is overdispersed using a negative binomial family but keep getting the following error message: Error in glmm.admb(data$total_bites_rounded ~ age_class_back, random = ~f...

...ter the programing done . searched the whole computer desn't find any clue. I posted my output below. I really appreciate if you can help me with the questions. source("http://www.mi.uib.no/~skaug/cash/lesaffre_dat.s <http://www.mi.uib.no/%7Eskaug/cash/lesaffre_dat.s>") fit_glmmADMB_ip <- glmm.admb(y~treat,random=~1,group="subject",impSamp =100,data=lesaffre,family="binomial",link="logit",save.dir= NULL) Initial statistics: 2 variables; iteration 0; function evaluation 0 Function value 1.5926934e+003; maximum gradient component mag 1.2500e+00...

Hello, I was wondering if weighting has been added to glmmadmb as of yet? I found a post about a year ago that it it hadn't been implemented yet but I was hoping the documentation may just have not yet caught up. Thanks, Trevor Davies [[alternative HTML version deleted]]

Hello, I am modelling in glmmADMB count data (I´m using a negative binomial distribution to avoid possitive overdispersion) with four fixed and one random effect. I´m also using MuMIn package to calculate the AICc and also to model averaging using the function dredge. What I do not understand is why dredge calculates a different va...

Hi R-users,   I intend to apply a mixed model on a set of longitudinal data, with a negative binomial distributed dependent variable, and after following the discussions on R help list I saw that more experienced people recommended using lmer (from lme4 pack), glmmPQL (from MASS) or glmm.admb (from glmmADMB pack)     My first problem: yesterday this syntax was ok, now I get this weird message (I got it before when I was using my own set of data)   >        data(epil2) >        glmm.admb(y~Base*trt+Age+Visit,random=~Visit,group="subject",data=epil2,family="nbinom") 'C:/Doc...

Hola! Estoy con un problema con mis datos, tengo datos de abundancia y tengo que analizarlas con glmm. Uso la función glmmadmb() del paquete glmmADMB de R, que acepta varias familias de distribución. El problema es que al hacer los modelos, no me muestra el residual deviance ni los grados de libertad, para poder calcular la overdispersión. Alguien sabe cómo puedo calcularla en esa función? o con la función lmer del paquete...

I am using the 'glmmPQL function in the 'MASS' library to fit a mixed effects logistic regression model to simulated data. I am conducting a series of simulations, and with certain simulated datasets, estimation of the random effects logistic regression model unexpectedly terminates. I receive the following error message from R: Error in lme.formula(fixed=zz + arm.long,random=~1 |