similar to: Changing appearance of band edges in xYplot()

> (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]

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, 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 >

I just installed R 2.4 on a windows machine and installed the lme4 package version 0.9975-1. Unfortunately this version requires the 0.9975-2 version of the Matrix package which I cannot seem to find. It seems the newest version I can find is 0.9975-1. Is there somewhere I could find this newer version. Mark Lyman

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, I have been bitten by a cryptic comment in the help page for xYplot(). Here is some code from Madeline Bauer, one of the authors, which is essentailly the code on the help page for xYplot(): # This example uses the summarize function in Hmisc to # compute the median and outer quartiles. The outer quartiles are # displayed using "filled bands" set.seed(111) dfr

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

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, 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

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

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, 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,

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

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

I am using xYplot to plot data and CIs. How do I add several lines to the figure? _____________________________ 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 +1-434-982-4729 Lab: B019

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

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. :

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, 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