similar to: r-square for non-linear regression

Dear Mixed Effect Friends, Somehow, R(1021, Windows) seem to run differently from S Plus: The soybean example from Pinheiro/Bates on page 290 fails in R. (Soybean1 is Soybean with the NA and "critical" case removed. Same procedure with full Soybean). > fm1Soy.lis<-nlsList(weight~SSlogis(Time,Asym,xmid,scal),data=Soybean1) > fm1Soy.nlme<-nlme(fm1Soy.lis) Error: Singularity

Is there an easy way to remove data frame columns by name instead of by index? The following gives the idea remove<-c("subj","drug") data[-remove] I found a solution with a few evals and substitutes, similar to that used in reshapeLong, but there must be an easier way out. Dieter --------------------------------------- Dr. Dieter Menne Biomed Software 72074 T?bingen Tel

I am confused by the logic of renaming: # Rename individual list items? Empl<-list(employee="Anna",spouse="Fred") names(Empl)<-c("empl","spo") names(Empl) #[1] "empl" "spo" # worked like a charm... but names(Empl[1])<-"newempl" # no error message, yet .... names(Empl) #[1] "empl" "spo" #

Using a formula converted with as.formula with lme leads to an error message. Same works ok with lm, and with lme and a fixed formula. # demonstrates problems with lme and as.formula demo<-data.frame(x=1:20,y=(1:20)+rnorm(20),subj=as.factor(rep(1:2,10))) demo.lm1<-lme(y~x,data=demo,random=~1|subj) print(summary(demo.lm1)) newframe<-data.frame(x=1:5,subj=rep(1,5))

Dear friends of nlme, Running quinModel (Pinheiro/Bates page 380) on R (current release, windows) gives: Nonlinear mixed-effects model fit by maximum likelihood Model: conc ~ quinModel(Subject, time, conc, dose, interval, lV, lKa, lCl) Data: Quinidine Log-likelihood: -497 Fixed: lV + lKa + lCl ~ 1 lV lKa lCl 5.382 -0.273 2.470 Random effects: Formula: list(lV ~ 1, lCl ~ 1)

Dear R-Listers, to measure the psychometric curve of pitch discrimination, one sequentially presents two tones of slightly different pitch to an observer (animal will do), and asks "which is higher". The pschometric curve is the fraction of correct responses plotted against the pitch difference. It passes through 50% (pure guessing) at zero and normally approaches 100% at large

deriv seems to have problems with a minus-sign before a bracket. Below are four examples of the same function, the top one is wrong, all others are correct (hopefully). Rest of expression not shown, it is the same for all versions. _ platform i386-pc-mingw32 arch x86 os Win32 system x86, Win32 status major 1 minor 3.0 year 2001 month 06 day 22 language R

I have problem getting the concept of a nested fixed variable into the nlme scheme. I fear the question is very stupid. In the past I had asked this before, and never got a reply (in other cases, the response was within hours). I also checked the S-list, where several similar enquiries of other people are orphaned. We have a cross-over design, where patient are treated two weeks with placebo,

Under platform i586-pc-linux-gnu arch i586 os linux-gnu system i586, linux-gnu status major 1 minor 5.0 year 2002 month 04 day 29 language R (haven't updated to 1.5.1 because it's not available on Mandrake 8.1 which is on my

I have a two-dimensional loess fit, and need to calculate the gradient field from it. Even after looking at loess.c and loess.f, I don't understand the meaning of the returned polynomial coefficients. Or is the brute force method of using a tangential approx to the fitted values the way to go? Dieter Menne --------------------------------------- Dr. Dieter Menne Biomed Software 72074

Dear R-supporters, I have results of lme similar to those shown in Fig. 1.21, p.51 of Pinheiro/Bates. However, In my data set, one of the panels is missing, leading to an ugly frame shift of the following panels. How can I replace one of the panels by an empty one to restore the raster? Dieter Menne --------------------------------------- Dr. Dieter Menne Biomed Software 72074 T?bingen Tel

Greetings, I use S+, Stata, SAS and R depending on the weather... The script file editors in S+, SAS and Stata all allow me to submit a portion of a developing script file to the running process. In R I have to use an external editor and either source the entire file or do lots of copy-and-pasting. Are there any editors out there which interface to R more closely and let me submit a section

Hi Dieter, Sorry my mistake. I wanted to convert them into Decimal (not Hexadecimal). Given this string, the desired answer follows: > ascii_str <- "ORQ>IK" 79 82 81 62 73 75 > ascii_str2 <- "FDC" 70 68 67 - Gundala Viswanath Jakarta - Indonesia On Mon, Dec 22, 2008 at 5:49 PM, Dieter Menne <dieter.menne at menne-biomed.de> wrote: > Gundala

Hi Dieter and R community: I tried both of these three versions with ylim as suggested, none work: I am getting only single (pch = 16) not overlayed (pch =3) everytime. *vs 1* require(lattice) xyplot(Sepal.Length ~ Sepal.Width | Species , data= iris, panel= function(x, y, subscripts) { panel.xyplot(x, y, pch=16, col = "green4", ylim = c(0, 10)) panel.lmline(x, y, lty=4, col =

Dear R's, I have a survey where customers rank a set of 5 packages for a product, so the response variable looks like a d b c a c d b d b a c Predictors variables are 4 socio-economic parameters. I have modelled the FIRST choice of each subject as a multinomial model, similar to the housing example in MASS ch7.3, , but I would prefer to use the whole rank-set instead. Can someone give me a

I try to display the grouping variable in coplot. It work, but it's special solution and rather ugly. Any better idea? # Simulate my data frame data(state) x77<-data.frame(state.x77) x77$region<-state.region coplot(Life.Exp ~ Income | region, data=x77, show.given=F, subscripts=T, panel = function(x, y,subscripts, ...) { panel.smooth(x, y, span = 1., ...)

I created a report with Sweave today, that displayed perfectly on screen, but crashed both Adobe Pro 9.3.1 and Adobe Reader 9.0 on Windows 7. Output with Foxit Reader was flawless. I was able to reproduce a "minimal" example, which is not really minimal but the smallest I could get after 2 hours of wasting paper. Required: latticeExtra calling both panel.xyplot(...) # both

Dear UseR, I do not know if this a problem with me, my data or cph/survest in package design. The example below works with a standard data set, but not with my data, but I cannot locate the problem. Note that I am using an older package of survival to avoid a problem with the newly renamed function in survival meeting Design. Dieter # First, check standard example to make sure library(Design)

Dear List, assume I want to make a minor local change in a package that is supplied as .rda. For example, I want to get rid of the non-verbose-protected "Iteration" message in GLMM/lme4. Probably I have to load / change / save the package, but could someone help me to get the syntax right? Dieter Menne

Dear friends of lattice, I know how to position trellis plots with print(...,split,more=T) or (...position). Sometimes I wish I had something like the old "par(mfcol=2, mfrow=3)" mechanism, where the next free viewport is automatically chosen. I tried fiddling with grid-viewports, but could not find an easy solution. Did I miss something? Dieter Menne