similar to: Using termplot() with transformations of x

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) #

Hi all I've been getting some emails from the R package maintainers that I need to update some code in a CRAN packge that uses FORTRAN, to comply with (not so recent) changes. I've been a little busy... I'm having trouble adjusting my code. I hope someone can help. The package was working fine, and a few R functions in my package had lines like this: tmp <- .Fortran(

Hi all I am trying to build an R package, which I have successfully done many times before, but have an error I cannot trace. I hope someone can help me. Here's is some edited output (full output below if it is useful): pdunn2 at PDunnUbuntu:~/DSdata$ R CMD build GLMsData * checking for file 'GLMsData/DESCRIPTION' ... OK * preparing 'GLMsData': * checking DESCRIPTION

Hi all I use Sweave extensively to mix R and LaTeX, and often have R code appearing in my LaTeX document. Just a quick question then: What is the best way to add example of R commands into LaTeX in-line? (That is, not using Sweave.) For example, suppose I wish to place in my document this instruction: ...is done in R using the command \verb|lm( y ~ var.one + var.two )| as follows: I

On Thu, 18 Mar 2004 k.hansen@biostat.ku.dk wrote: > The bug exists on R-1.9.0-alpha compiled the 10/3. > > Termplot has a problem if either the model only contains a single term > or if asked to plot a single term. In addition there are problems with > the option se = TRUE. I can't reproduce this in either R-devel or 1.8.1, and termplot hasn't changed since January. I do

At 11:57 25/10/00 +0100, Brian Ripley wrote: >> Date: mer., 25 oct. 2000 12:38:55 +0200 >> From: Emmanuel Paradis <paradis@isem.univ-montp2.fr> > >> I think it would be nice to have par(ask=T) set by default in termplot(), >> like it is in plot.lm(). > >Well, it isn't really the default in plot.lm, the default for `ask' being > >interactive()

Hi, Is this a bug in termplot, or (once again) do I just not understand what R is really doing? I am using termplot to contruct partial residual plots, 1. For all terms at once 2. One term at a time but I get different results from these two methods. To give a concrete example, I would have thought the top and bottom rows of the plot constructed with the following code would be identical.

From ?termplot: col.se, lty.se, lwd.se: color, line type and line width for the ?twice-standard-error curve? when ?se = TRUE?. ...which is findable, but might usefully also be made explicit in the definition of the se= argument. -pd > On 10 Jan 2018, at 23:27 , Eric Goodwin <Eric.Goodwin at cawthron.org.nz> wrote: > > Thanks for your prompt reply Duncan. > >

Thanks for your prompt reply Duncan. I had indeed assumed they were what the help file says until observation raised doubts, which is why I queried it. >From reading the code for termplot(), it seems that either the predict() function doesn't return the 1x standard error, or the curves plotted by the termplot() function are not 1x standard errors. If they're not 1x standard errors,

I have a suggested addition to termplot. We have a local mod that is used whenever none of the termplot options is quite right. It is used here almost daily for Cox models in order to put the y axis on a risk scale: ---- fit <- coxph(Surv(time, status) ~ ph.ecog + pspline(age), data=lung) zz <- termplot(fit, se=TRUE, plot=FALSE) yy <- zz$age$y + outer(zz$age$se, c(0, -2, 2),

Hi all Consider the family function, as used by glm. The help page says the value of the family object is a list, one element of which is the following: dev.resids function giving the deviance residuals as a function of (y, mu, wt). But reading any of the family functions (eg poisson) shows that dev.resids is a function that computes the *square* of the deviance residuals (at least, by

I'm making some functions to illustrate regressions and I have been staring at termplot and predict.lm and residuals.lm to see how this is done. I've wondered who wrote predict.lm originally, because I think it is very clever. I got interested because termplot doesn't work with interactive models: > m1 <- lm(y ~ x1*x2) > termplot(m1) Error in `[.data.frame`(mf, , i) :

Hi together, I always get an error message with using ylim in termplot(), like this: > x<-(1:10) > y<-(10:1) > l<-lm(y~x) > termplot(l,ylim=c(1,2)) Is this a bug, or is there another possibility to do that? Especially, I would like to use term.plot() for gamlss objects. Thanks for your help! Andreas -- Echte DSL-Flatrate dauerhaft f?r 0,- Euro*!

I have used glm and stepAIC to choose a best model. I can use termplot to assess the contribution of each explanatory variable in the glm. However the final model after running stepAIC includes interaction terms, and when I do termplot I get "Error in `[.data.frame`(mf, , i) : undefined columns selected". I also see the termplot detail saying "Nothing sensible happens for

Hello, A reviewer queried what the intervals were on the termplot I provided in a report. The help file for termplot() suggests they're standard errors (se=T), but in the code the se.fit values from predict() are multiplied by 2, suggesting it's a rough 95% confidence interval, is that right? Many thanks, Eric Goodwin Scientific data analyst | Coastal and Freshwater Group Cawthron

Hi all, I noticed some very odd behaviour in the termplot function of the stats package due to the following lines : 18. if (is.null(data)) 19. data <- eval(model$call$data, envir) This one will look in the global environment, and renders the two lines after this 20. if (is.null(data)) 21. data <- mf completely obsolete. If nothing is found, an error is returned. If

Does anyone have, or has anyone ever considered making, a version of 'termplot' that allows the user to specify that all plots should have the same y-limits? This seems a natural thing to ask for, as the plots share a y-scale. If you don't have the same y-axes you can easily misread the comparative contributions of the different components. Notes: the current version of termplot

Does anyone have, or has anyone ever considered making, a version of 'termplot' that allows the user to specify that all plots should have the same y-limits? This seems a natural thing to ask for, as the plots share a y-scale. If you don't have the same y-axes you can easily misread the comparative contributions of the different components. Notes: the current version of termplot

I am running R 1.2.1 under Windows 98SE. termplot() currently fails when there are composite terms, thus: > library(mass) > data(hills) > hills.lm <- lm(time ~ climb + poly(dist, 2), data = hills) > termplot(hills.lm) Hit <Return> to see next plot: Error in eval(expr, envir, enclos) : Object "dist" not found The call >

The bug exists on R-1.9.0-alpha compiled the 10/3. Termplot has a problem if either the model only contains a single term or if asked to plot a single term. In addition there are problems with the option se = TRUE. Analysis: termplot starts with terms <- if (is.null(terms)) predict(model, type = "terms", se = se) else predict(model, type = "terms", se = se,