similar to: Zero inflated Binomial Lasso

Dear all, I want to build a model in R based on animal collection data, that look like the following Nr Village District Site Survey Species Count 1 AX A F Dry B 0 2 AY A V Wet A 5 3 BX B F Wet B 1 4 BY B V Dry B 0 Each data point shows one collection unit in a certain Village, District, Site, and Survey for a certain Species. 'Count' is the number of animals collected in that

Hi, I want using zero-inflated negative binomial regression model to classify data(a vector of data), that is I want know each observed value is more likely belong to the "zero" or "count" distribution(better with relative probability). My data is some like: count site samp 12909 1 1 602 1 2 50 1 3 1218 1 4 91291 1 5

I'm trying to use the inflated binomial distribution of zeros (since 75% of the values are zeros) in a randomized block experiment with four quantitative treatments (0, 0.5, 1, 1.5), but I'm finding it difficult, since the examples available in VGAM packages like for example, leave us unsure of how it should be the data.frame for such analysis. Unfortunately the function glm does not have

Hello, I am having a problem with the zero-inflated negative binomial (package pscl). I have 6 sites with plant populations, and I am trying to model the number of seeds produced as a function of their size and their site. There are a lot of zero's because many of my plants get eaten before flowering, thereby producing 0 seeds, and that varies by site. Because of that and because the

Dear R crew: I think I am in the right mailing list. I have a very simple dataset consisting of two variables: cestode intensity and chick size (defined as CAPI). Intensity is clearly overdispersed, with way too many zeroes. I'm interested in looking at the association between these two variables, i.e. how well does chick size predict tape intensity? I fit a zero inflated negat. binomial

Hi, I am new to R and has been depending mostly on the online tutotials to learn R. I have to deal with zero inflated negative binomial distribution. I am however unable to understand the following example from this link http://www.ats.ucla.edu/stat/r/dae/zinbreg.htm The result gives two blocks. *library(pscl) zinb<-zeroinfl(count ~ child + camper | persons, dist = "negbin", EM =

Hi all, I am running the following model: > glm89.nb <- glm.nb(AvGUD ~ Year*Trt*Micro) where Year has 3 levels, Trt has 2 levels and Micro has 3 levels. However when I run it has a zero inflated negative binomial (as I have lots of zeros) I get the below error message: > Zinb <- zeroinfl(AvGUD ~ Year*Trt*Micro |1, data = AvGUD89, dist = "negbin") Error in optim(fn =

Hi! I'm running a zero-inflated negative binomial regression on a large (n=54822) set of confidential data. I'm using the code: ZerNegBinRegress<-zeroinfl(Paper~.|., data=OvsP, dist="negbin", EM=TRUE) And keep getting the error: Warning message: glm.fit: fitted probabilities numerically 0 or 1 occurred I've done enough reading about this error to realize that I have

I am a novice in R but using R 2.13.1 in Windows I wish to be able to calculate the percentage variation in a zero-inflated negative binomial regression model that is explained by the two predictors in my model. My response variable was no. of dung-piles per km and the predictor of excess zeros was distance to major road (km) . Thanks in advance. Boafo [[alternative HTML version

Hi, I am a little confused at the output from predict() for a zeroinfl object. Here's my confusion: ## From zeroinfl package fm_zinb2 <- zeroinfl(art ~ . | ., data = bioChemists, dist = "negbin") ## The raw zero-inflated overdispersed data > table(bioChemists$art) 0 1 2 3 4 5 6 7 8 9 10 11 12 16 19 275 246 178 84 67 27 17 12 1 2 1 1

We are pleased to announce the following book: Title: Beginner's Guide to Zero-Inflated Models with R Authors: Zuur, Ieno Book website: http://www.highstat.com/BGZIM.htm Paperback or EBook can be order (exclusively) from: http://www.highstat.com/bookorder.htm TOC: http://www.highstat.com/BGS/ZIM/pdfs/TOCOnly.pdf Keywords: 430 pages. Zero inflated count data. Zero inflated continuous data.

Dear All, I am trying to fit some data both as a negative binomial and a zero inflated binomial. For the first case, I have no particular problems, see the small snippet below library(MASS) #a basic R library set.seed(123) #to have reproducible results x4 <- rnegbin(500, mu = 5, theta = 4) #Now fit and check that we get the right parameters fd <- fitdistr(x4, "Negative

Dear list, I'm currently trying to develop a model to assess clam yield potential in a lagoon. I'm using the zeroinfl function of the pscl package to fit a Zero-inflated negative binomial model, given the high occurrence of zero counts. I don't understand from the sentence in the pscl guide "Zero-inflated count models are a type of two-component mixture model, with a component

Hi all, First post for me here, but I have been reading on the forum for almost two years now. Thanks to everyone who contributed btw! I have a dataset of 4000 observations of count of a mammal and I am trying to predict abundance from a inflated-zero model as there is quite a bit of zeros in the response variable. I have tried multiple options, but I might do something wrong as every

Hi all I have developed a zero-inflated negative binomial model using the zeroinfl function from the pscl package, which I have carried out model selection based on AIC and have used likelihood ratio tests (lrtest from the lmtest package) to compare the nested models [My end model contains 2 factors and 4 continuous variables in the count model plus one continuous variable in the zero-inflated

Dear R crew: I am sorry this question has been posted before, but I can't seem to solve this problem yet. I have a simple dataset consisting of two variables: cestode intensity and chick size (defined as CAPI). Intensity is a count and clearly overdispersed, with way too many zeroes. I'm interested in looking at the association between these two variables, i.e. how well does chick

John Fox wrote <<< >From your description, it seems possible that there are too many zeros for a Poisson or negative-binomial model. Since the focus of your paper is the methodology, you might want to try a zero-inflated Poisson or negative-binomial model. Though I haven't tried them, I'm aware of two sources of R functions for zero-inflated count models -- zeroinfl(), from

Dear all, I am using gamlss (Package gamlss version 4.0-0, R version 2.10.1, Windows XP Service Pack 3 on a HP EliteBook) to relate bird counts to habit variables. However, most models fail because “the global deviance is increasing” and I am not sure what causes this behaviour. The dataset consists of counts of birds (duck) and 5 habit variables measured in the field (n= 182). The dependent

Here is a summary of responses to my original email (see my query at the bottom). Thank you to Achim Zeileis , Anders Nielsen, Pierre Kleiber and Dave Fournier who all helped out with advice. I hope that their responses will help some of you too. ***************************************** Check out glm.nb() from package MASS fits negative binomial GLMs.

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