similar to: glmm for ordinal repeated measurement

Hello, I am working in a longitudinal study, with a categorical variable as a dependent variable (alcohol consumption: no use, use, abuse and dependence) with repeated measures (baseline, 1 year, 2 years). Besides I have another variable with two groups: control and experimental. I would like to analyze the evolution in each group, I have though in lme, but I am not sure if I can do an lme with

Hi to all the people, I'm working with abundance data of some species, but containing too zero values, and the factors are the ones typical in a BACI experiment (Before-and-After-Control-Impact). Thus, these are two fixed factors. As the data does not holds the normality and homogeneity of variances assumptions of clasiccal ANOVA, I'm trying to fit a zero-altered model using the MCMC glmm

Dear R-users I am trying to understand how Sweave works by running some simple examples. In the example I am working with there is a chunk where the R-commands related to plotting a figure are placed. When running R CMD Sweave ? , pdflatex the output is a portrait figure. I wonder whether it would be possible to change the orientation to landscape (not in the latex file but in Rnw file). Many

Hi I have a problem with passing line and symbol parameters to user defined panel functions I had a look at the archives and created a panel function on what was shown and on panel.loess. I could not to get panel.locfit to work for what I intend it for. There is another layer to work with before success as lp() is called from locfit. xx <- structure(list(Farm = c("A",

Dear R-users, I would like to fit a glmm with cross-classified random effects with the function MCMCglmm. Something along the lines: model1<-MCMCglmm(response~pred1, random=~re1+re2, data=data) where re1 and re2 should be crossed random effects. I was wondering whether you could tell me specifying cross-classified random effects in MCMCglmm requires a particular syntax? Are there any

Dear All I am trying to specify the output directory and the directory for the log files (the same) for texi2dvi. The default for my windows computer is C:\Users\...\Documents which I do not want. The help guide: texinputs NULL or a character vector of paths to add to the LaTeX and bibtex input search paths. is a little cryptic for me this morning I have tried texi2dvi(file =

Dear all, I am trying to export my fixed effect results to Latex. I am using the plm package with the summary function. However, it does not look like apsrtable, stargazer, or any other package can accompany using the plm package. I am interested in a classic table with the coefficient in one row followed by the standard error in paranthesis in the next row and stars by the coefficient to show

Hi All I have regression coefficients from an experiment and I want to plot them in lattice using panel curve but I have run into error messages. I want an 3 panel conditioned plot of 2 curves of Treatment 2 in each panel conditioned by Treatment1, the example curve expression is x+value*x^2 A rough toy example to give an idea of what I want is: Data: data = expand.grid(Treatment1 =

I would like to use lattice graphics to plot multiple functions (or groups or subpopulations) on the same plot region, using different line types "lty" or colors "col" to distinguish the functions (or groups). In traditional graphics, this seems straightforward: First plot all the data using 'type="n"', and subsequently execute a series of "points"

Dear All I have a problem with the height of the boxes in the key in the following. (The text is over 2 lines to accentuate the problem of no space between the rectangles.) Is there an easy way to put a space between the rectangles; size controls the width but there appears to be nothing for the height? xyplot(1~1, key = list(corner = c(0.8,0.8),

Hi, I ran R (version 2.9.0) CMD build under root in Fedora (9). When it tried to remove "junk files" it removed EVERYTHING in my local account! (See below). Can anyone tell me what happened, and even more importantly if I can I restore what was lost. Panickingly, Jarrod [jarrod at localhost AManal]$ R CMD build MCMCglmm_2.05 * checking for file

Hi, I ran R (version 2.9.0) CMD build under root in Fedora (9). When it tried to remove "junk files" it removed EVERYTHING in my local account! (See below). Can anyone tell me what happened, and even more importantly if I can I restore what was lost. Panickingly, Jarrod [jarrod at localhost AManal]$ R CMD build MCMCglmm_2.05 * checking for file

Hi, I ran R (version 2.9.0) CMD build under root in Fedora (9). When it tried to remove "junk files" it removed EVERYTHING in my local account! (See below). Can anyone tell me what happened, and even more importantly if I can I restore what was lost. Panickingly, Jarrod [jarrod at localhost AManal]$ R CMD build MCMCglmm_2.05 * checking for file 'MCMCglmm_2.05/DESCRIPTION'

Good afternoon, I would like to ask for help in controlling y-axis limits and labels in lattice doplots. Unfortunately, the problem is somewhat convoluted, please bear with the long explanation. I would like to create a 3x3 lattice of dotplots, say subject ~ count. The plot is conditioned on variables treatment and risk: subject ~ count | treatment + risk. In the experiment, not all subjects

Hi, I am sorry if this is perceived as a C++ question rather than an R question. After uploading an R library to CRAN (MCMCglmm) the C++ code failed to pass the memory checks. The errors come in pairs like: Mismatched free() / delete / delete [] at 0x4A077E6: free (vg_replace_malloc.c:446) by 0x144FA28E: MCMCglmm (MCMCglmm.cc:2184) Address 0x129850c0 is 0 bytes inside a block of size 4

Hello all, I'm having trouble installing the package 'gregmisc'. I've run the command: > R CMD INSTALL -l /usr/lib/R/library /tmp/gregmisc_0.9.0.tar.gz And I can see it shows up on the list of available packeage when I issue > library() But when I do >library(gregmisc) I get: Error in parse(file, n, text, prompt) : syntax error on line 3105 All the other packages

Hi! When inserting R plots into a document using odfWeave, I fought for a while to get Lattice plots use the same text size as base plots. I eventually discovered that specifying a point size via e.g. svg(pointsize=10) has no effect on Lattice plots. One needs to adjust the size manually via: trellis.par.set(fontsize=list(text=10, points=8)) This is also developed for both Lattice and ggplot2 by

Hi All, The data set that I have is a cluster data, and I want to run a HLM mixed model with multi-level response. Here is my data set: response: - Level (num: 1, 2, 3, 4, 5 - 5 levels) Covariates: - Type (Factor: A, B, C - 3 levels) - yr (num: 2006, 2007, ...) - Male (num: 0=not Male, 1=Male - 2 levels) - Ethnicity (Factor: A, B, H, ..., - 7 levels) - ELL (num: 0, 1, - 2

Hi all I am preparing a document using Sweave; a really useful tool. But I am having a problem. Consider this toy example Sweave file: \documentclass{article} \begin{document} <<echo=TRUE,results=verbatim>>= options(width=40) # Set width to 40 characters hide <- capture.output(example(glm)) # Create an example of the problem, but hide the output summary(glm.D93) #

Dear all, When defining explicit keys with xyplot, I have previously used the fill parameter to set the background colour of point symbols. That's no longer working for me, and I am wondering whether it's a bug or whether I've misinterpreted the documentation and have been relying on a feature wasn't intended. If the latter, can anyone suggest the correct way to do it?