similar to: logging mouse clicks

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 ****************** R version 2.4.1 RC (2006-12-14 r40181) powerpc-apple-darwin8.8.0 locale: C

Hi, Does anyone know how to do a coord_trans() in which the y-axis is tranformed into (for example) -1000/y? Thanks, _____________________________ Professor Michael Kubovy University of Virginia Department of Psychology USPS: P.O.Box 400400 Charlottesville, VA 22904-4400 Parcels: Room 102 Gilmer Hall McCormick Road Charlottesville, VA 22903 Office: B011

Dear r-helpers, Could you please help me solve the following problem: When I run require(AlgDesign) trt <- LETTERS[1:5] blk <- 10 trtblk <- 3 BIB <- optBlock(~., withinData = trt, blocksizes = rep(trtblk, blk)) In response to the last command, R complains: Error in optBlock(~., withinData = trt, blocksizes = rep(trtblk, blk)) : object ".Random.seed" not found The

> (fm1 <- lmer2(Reaction ~ Days + (Days|Subject), sleepstudy)) Error in as.double(start) : Calloc could not allocate (888475968 of 4) memory ************************* > sessionInfo() R version 2.4.1 (2006-12-18) powerpc-apple-darwin8.8.0 locale: C attached base packages: [1] "grid" "datasets" "stats" "graphics" "grDevices"

Dear r-helpers, When I do an xYplot and display the result in a JavaGD() window, the font is sans-serif (presumably Helvetica). When I send the figure to a pdf, I get a serif font (presumably times). How do I insure that the font in the pdf is indeed the default sans serif? > sessionInfo() R version 2.4.1 (2006-12-18) i386-apple-darwin8.8.1 locale: C attached base packages: [1]

Hi, I would like to use the effect() function (actually a slightly modified version of it) on the output of the lmer() function in the lme4 package. But the effects package requires the nlme pacvkage, which is incompatible with lme4. Workaround? ______________________________________________ Professor Michael Kubovy University of Virginia Department of Psychology for mail add: for FedEx or

Dear R-helpers, I would like the bands in an xYplot() to be gray without dark edges. I've tried playing around with col.bands, but that seems not to affect the edges, although changin col.fill does change the fill as I would expect. I would appreciate pointers. _____________________________ Professor Michael Kubovy University of Virginia Department of Psychology USPS: P.O.Box

Dear R-helpers, I don't see a difference between the following two plots of effect objects, which I understand should be different. What am I missing? require(doBy) require(effects) data(budworm) m1 <- glm(ndead/20 ~ sex + log(dose), data=budworm, weight=ntotal, family=binomial) m1.eff <- all.effects(m1) plot(m1.eff, rescale.axis = FALSE, selection = 2, main = 'rescale =

Dear R-helpers, How do I transform v <- c('insd-otsd', 'sppr-unsp') into c('insd--otsd', 'sppr--unsp') ? _____________________________ Professor Michael Kubovy University of Virginia Department of Psychology USPS: P.O.Box 400400 Charlottesville, VA 22904-4400 Parcels: Room 102 Gilmer Hall McCormick Road Charlottesville, VA 22903

How does one define PDFs as yet undefined in R, such as the ex- gaussian, the sum of two RVs, one exponential, one Gaussian? The PDF would then be the convolution of an exponential PDF, dexp(), and a normal, dnorm(). Kindly cc me in your reply to r-help. Thanks, _____________________________ Professor Michael Kubovy University of Virginia Department of Psychology USPS: P.O.Box 400400

Dear r-helpers, Does anyone have a straightforward example of putting together three unrelated (expect for a common y-axis) xyplot() figures in what would be in base graphics a par(mfrow = c(1, 3)) arrangement? _____________________________ Professor Michael Kubovy University of Virginia Department of Psychology USPS: P.O.Box 400400 Charlottesville, VA 22904-4400 Parcels: Room 102

df1 <- data.frame(a = LETTERS[1:2], b = LETTERS[3:4], c = 1:2) I am looking for an idiom that swaps the elements of df$a and df$b when (e.g.) df$c == 2, resulting in df2 <- data.frame(a = LETTERS[c(1, 4)], b = LETTERS[c(3, 2)], c = 1:2) _____________________________ Professor Michael Kubovy University of Virginia Department of Psychology USPS: P.O.Box 400400 Charlottesville, VA

What am I doing wrong? > install.packages("Hmisc") trying URL `http://cran.r-project.org/src/contrib/PACKAGES' Content type `text/plain; charset=iso-8859-1' length 47565 bytes opened URL ================================================== downloaded 46Kb trying URL `http://cran.r-project.org/src/contrib/Hmisc_3.0-1.tar.gz' Content type `application/x-tar' length

Dear Friends, Here is an algorithm for finding concave hulls: http://get.dsi.uminho.pt/local/ Has anyone implemented such an algorithm in R? RSiteSearch('concave hull') didn't reveal one (I think). _____________________________ Professor Michael Kubovy University of Virginia Department of Psychology Postal Address: P.O.Box 400400, Charlottesville, VA 22904-4400 Express Parcels

Dear R-helpers, When I try > anova(txtE2.lme, txtE2.lme1) Model df AIC BIC logLik Test L.Ratio p-value txtE2.lme 1 10 8590 8638 -4285 txtE2.lme1 2 7 8591 8624 -4288 1 vs 2 6.79 0.0789 > latex(anova(txtE2.lme, txtE2.lme1)) Error: object "n.group" not found I don't even see n.group as one of the arguments of latex() I checked to see >

Dear R-helpers, It is not clear to me how you get measurement.error SD when you have a single dataset, and it is not clear to me how sensitive SIMEX is to errors in the estimates of measurement error. Could someone please point me to the relevant literature? _____________________________ Professor Michael Kubovy University of Virginia Department of Psychology USPS: P.O.Box 400400

hi, is there an option to calculate the 'within' & 'between' group variances for a simple ANOVA (aov) model (2 groups, 1 trait, normally distr.) ? or do I have to calculate them from the Sum Sq ? thanks for your time and greetings, gregor -- Gregor Rolshausen PhD Student; University of Freiburg, Germany e-mail: gregor.rolshausen at biologie.uni-freiburg.de tel. :

Dear r-helpers, Can anyone suggest why lm() doesn't complain here: summary(osss.lm1 <- lm(logOdds ~ c.setSize %in% task, data = osss)) whereas in package:nlme (and in package:lme4) osss.lmL <- lmList(logOdds ~ c.setSize %in% task | subj, data = osss) # Error in `contrasts<-`(`*tmp*`, value = "contr.treatment") : # contrasts can be applied only to factors with 2 or more

Dear Friends, I not sure whether this is an Sweave or a beamer problem. The Rnw file: \documentclass[compress,smaller]{beamer} %\documentclass{article} %\usepackage{beamerarticle} \usepackage{Sweave} \title{Psychophysics II} \date{September 9, 2008} \begin{document} \frame{ \begin{Schunk} \begin{Sinput} > ro <- 0.2 > c <- seq(from = -3, to = 4, by = 0.1) > fn <- 1 -

Dear r-helpers, xx <- c(0.000, 0.210, 0.714, 0.514, 1.000, 0.190, 0.590, 0.152) yy <- c(0.000, 0.265, 0.256, 0.521, 0.538, 0.761, 0.821, 1.000) aa <- c(19, 19, 19, 21, 19, 21, 21, 21) x0 <- xx[c(1, 1, 2, 2, 2, 3, 3, 4, 4, 4, 5, 6, 6, 7)] y0 <- yy[c(1, 1, 2, 2, 2, 3, 3, 4, 4, 4, 5, 6, 6, 7)] x1 <- xx[c(2, 3, 3, 4, 6, 4, 5, 5, 6, 7, 7, 7, 8, 8)] y1 <- yy[c(2, 3, 3, 4, 6, 4, 5,