similar to: R-help Digest, Vol 32, Issue 26

Hi, I have this: lme(y~x1+x2,random=~1|x1/x2) How to make this random effect using lmer? I try this: lmer(y~x1+x2+(1|x1/x2) But it dont work. Any idea? Thanks Ronaldo -- System halted! -- |> // | \\ [***********************************] | ( ?? ?? ) [Ronaldo Reis J??nior ] |> V [UFV/DBA-Entomologia ] | / \ [36570-000 Vi??osa -

Hello R-help, I'm studying an example in the R book.? The data file is available from the link below.http://www.bio.ic.ac.uk/research/mjcraw/therbook/data/fertilizer.txt Could you explain Why the results from lme() and lmer() are different in the following case? In other examples, I can get the same results using the two functions, but not here...? Thank you.Miya library(lme4)library(nlme)#

Long ago (Sat, 2 Nov 2002), Bill Hart <w.hart at sbcglobal.net> wrote: > An R newbie here. I am using R 1.6 currently and have > (successfully, I think) installed the Foreign package. > Tried to import a data file created with Stata 7.0 > SE. Had minor problems with syntax then R decided > that my file was not really a Stata file. It rejected > the file saying

helpeRs, I have a nice looking mosaic plot in an article to be published soon. Sadly, the published version will be in black and white and so ruin the advantage of the default shading scheme of tiles. What would readers suggest as an alternative shading scheme? If I have a black-and-white shading scheme graduated according to suitable cutoffs I won't be able to tell positive from

Hi! How to calculate the correct SE of mean in a nested or spliplot anova? Nested example: --------------------- m <- aov(Glycogen~Treatment+Error(Treatment/Rat/Liver)) > m Call: aov(formula = Glycogen ~ Treatment + Error(Treatment/Rat/Liver)) Grand Mean: 142.2222 Stratum 1: Treatment Terms: Treatment Sum of Squares 1557.556 Deg. of Freedom 2 Estimated

r-help at stat.math.ethz.ch on Saturday, May 13, 2006 at 6:00 AM -0500 wrote: >>One of my friends recently wrote his PhD thesis from University of >>Leeds under Kanti Mardia's direction. I bet your friend was really angling for that. -- Alan B. Cobo-Lewis, Ph.D. (207) 581-3840 tel Department of Psychology (207) 581-6128 fax University of Maine Orono, ME 04469-5742 alanc

Dear R users, I have been having problems getting believable estimates from anova on a model fit from lmer. I get the impression that F is being greatly underestimated, as can be seen by running the example I have given below. First an explanation of what I'm trying to do. I am trying to fit a glmm with binomial errors to some data. The experiment involves 10 shadehouses, divided between

Sorry for bothering you - but I have a little problem. I`m completely new in R and trying to use lmer. That works, but I m not sure if my code is right, so I would just like to get an opinion from the experts. I have a Growthrate of plants (RGR Fixed Factors: Fertilizer, Status (alien or native plants) and their interaction Random Factors: Age is a covariable; than I have plantfamily and

Dear R Community, Below is a problem with a simple ggplot2 graph. The code returns the error message below. Error: stat_count() must not be used with a y aesthetic. My code is below and the data is attached as a ?text? file. # Graph of the probabilities library(digest) library(DT) datatable(probability) str(probability) probability$Fertilizer <- as.factor(probability$Fertilizer)

Hi James, If you want to specify the y-values, you need to use stat="identity" as below: ggplot(probability, aes(x=Fertilizer, y=prob)) + geom_bar(stat="identity", aes(fill=Treatment)) best, huzefa On Tue, Apr 12, 2016 at 1:02 PM, James Henson <jfhenson1 at gmail.com> wrote: > Dear R Community, > > Below is a problem with a simple ggplot2 graph. The code

Hi all, I analysed my data with lme and after that I spent a lot of time for mean separation of treatments (post hoc). But still I couldn’t make through it. This is my data set and R scripts I tried. replication fertilizer variety plot height 1 level1 var1 1504 52 1 level1 var3 1506 59 1 level1 var4 1509 54 1 level1 var2 1510 48 2 level1 var1 2604 47 2 level1 var4 2606 51 2 level1 var3

Dear R folk, First off I want to thank those of you who responded with comments for my R quick and dirty stats tutorial. They've been quite helpful, and I'm in the process of revising them. When it comes to repeated measures MANOVA, I'm in a bit of a bind, however. I'm beginning to see that all of the documentation is written for psychologists, who have a slightly

Does anyone know how to extract residuals in lmer? Here's the error I get: > crop.lme=lmer(response~variety*irrigation*pesticide+(1|rep)+(1|rep: pesticide)+(1|rep:pesticide:irrigation), crop.data) > qqnorm(crop.lme) Error in qqnorm.default(crop.lme) : y is empty or has only NAs > resid(crop.lme) NULL Thanks! --Jake

Hello everyone I am currently trying to conduct analysis of my graduate thesis data using a mixed effects model and I have reached an impass. When I try to conduct a multiple comparison, I get an error (See below): > fm3<- lme(abovegroundbiomass.m.2~medium*amelioration*fertilizer*treatment, random=~1|block/medium/amelioration/fertilizer) > tukeytest<-glht(fm3,

Hi, we have a split-plot experiment in which we measured the yield of crop fields. The factors we studied were: B : 3 blocks I : 2 main plots for presence of Irrigation V : 2 plots for Varieties N : 3 levels of Nitrogen Each block contains two plots (irrigated or not) . Each plot is divided into two secondary parcels for the two varieties. Each of these parcels is divided into three subplots

Hi there, I have a experimental design related question. I have done a experiment with 3 factors. The design matrix is similar to: > data.frame(Factor.1 = rep(rep(0:2, each = 3),3), Factor.2 = rep(c("U","S","N"), 9), Factor.3 = rep(0:2, each = 9)) Factor.1 Factor.2 Factor.3 1 0 U 0 2 0 S 0 3 0 N

Hi everyone! I tried to look up in the previous topics whether there was something similar to my question but I think there's nothing corresponding... Anyway! Here is my problem: I have a plot (qplot()) in which I want to insert axis labels with the following text: kg NH4+ N-equiv. * ha-1 yr-1 (well... 4 smaller and down and + as a power (the same for the -1) but I am sure you understood

Hi, I have a data frame with variables a, b, c (character vars) and t (time var, could be represented as POSIXct or character, depending on which is most useful. The format is "yyyy-mm-dd hh:mm:ss CET"). Now, I want to sort the data frame in ascending order by a, b, c and then in descending order by t. Here's what I've got, but I'm not sure how to put the

Hi,   I am making a mock user interface in tcltk and I would like to add a 'check menu button' such as shown here: http://zetcode.com/tutorials/pygtktutorial/images/checkmenuitem.png   Does anybody know how to do this? I am quite new to R. Cheers!! Albert-Jan ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ All right, but apart from the sanitation, the medicine,

Hi,   I'm reading 100s of excel files and many of them contain links to external files (I hate that, but that aside). Every time such a file is opened, a menu pops up asking if I want to update the links. I never want to update the links. I used the macro recorder to see what code would be needed to suppress that message, but to no avail (I tried more variations, but one attempt is shown