similar to: Simple package question

Dear Terry, Does fitting group + age:group instead of age*group solves your problem? Best regards, ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest team Biometrie & Kwaliteitszorg / team Biometrics & Quality Assurance Kliniekstraat 25 1070 Anderlecht Belgium To call in the statistician after the experiment is done may be no more

Question: I am trying to impliment a function in R that we use quite regularly in Splus, and it fails due to a lack of the "terms.inner" function in R. The substitute is? Part question and part soapbox: Why remove terms.inner from R? It's little used, but rather innocuous. Mostly soapbox: I figured it was no big deal, as I originally discovered the use of terms.inner from

I'd like to get interaction terms in a model to be in another form. Namely, suppose I had variables age and group, the latter a factor with levels A, B, C, with age * group in the model. What I would like are the variables "age:group=A", "age:group=B" and "age:group=C" (and group itself of course). The coefficients of the model will then be the age effect

When I run R CMD check on the survival package I invariably get a note: ... * checking for file ?survival/DESCRIPTION? ... OK * this is package ?survival? version ?3.2-6? * checking CRAN incoming feasibility ... NOTE Maintainer: ?Terry M Therneau <therneau.terry at mayo.edu>? ... This is sufficient for the auto-check process to return the following failure message: Dear maintainer,

I am trying to clear up all the "NOTE"s before a CRAN submission, but am a bit confused about this one.?? What is it complaining about -- that it doesn't like my name? ... * checking for file ?deming/DESCRIPTION? ... OK * this is package ?deming? version ?1.4-1? * checking CRAN incoming feasibility ... [7s/18s] NOTE Maintainer: ?Terry Therneau <therneau.terry at mayo.edu>?

I've created some Splus code for a microarray problem that - needed to be in C, to take advantage of some sparse matrix properties - uses a cholesky decompostion as part of the computation For the cholesky, I used the cholesky2 routine, which is a part of the survival library. It does just what I want and I'm familiar with it (after all, I wrote it). In Splus, this all works

I cloned therneau/survival and the installation failed since there is no definition for exported function survfit(). A file seems to be missing - there is survfit0() and survfit0.R but, compared to CRAN, no survfit.R. Georgi Boshnakov ---------------------------------------------------------------------- Message: 1 Date: Thu, 05 Sep 2019 12:53:11 -0500 From: "Therneau, Terry M.,

Martyn, No, that didn't work. One other thing in the mix (which I don't think is the issue) is that I call one of the C-entry points of expm. So the DESCRIPTION file imports expm, the NAMESPACE file imports expm, and the init.c file is #include "R.h" #include "R_ext/Rdynload.h" /* Interface to expm package. */ typedef enum {Ward_2, Ward_1, Ward_buggy_octave}

I pride myself on having an extensive and comprehensive test suite for the survival package. However, I don't have a good procedure for testing the plotting routines. (Forget "good", I don't even have a third-rate procedure for this.) This was brought home with the latest release; within 24 hours I got a note about a problem. They y-axis range for a plot was calculated

I'm working on the next iteration of coxme. (Rather slowly during the summer). This is the most subtle code I've done in S, both mathematically and technically, and seems a perfect vehicle for the "literate programming" paradym of Knuth. The Sweave project is pointed at S output however, not source code. I would appreciate any pointers to an noweb type client that was

I've never seen this, and have no idea how to reproduce it. For resloution you are going to have to give me a working example of the failure. Also, per the posting guide, what is your sessionInfo()? Terry Therneau On 08/09/2012 04:11 AM, r-help-request at r-project.org wrote: > I have a couple of questions with regards to fitting a coxph model to a data > set in R: > > I have a

Is there a way to include the compiled version of a vignette in the doc directory but mark it to NOT be rerun by CRAN??? I think I remember that this is possible, but have forgotton how.?? (It might even be a false memory.) Terry T. Background:? Beth Atkinson and I are splitting out many of the vignettes from the survival package into a separate package survivalVignettes.? There are a few

And remove the cast on the return value of R_GETCCallable. And check that your function is found before using it. #include <R.h> #include <Rinternals.h> #include <R_ext/Rdynload.h> void bdsmatrix_prod4(int nrow, int nblock, int *bsize, double *bmat, double *rmat, int nfrail, double *y) { DL_FUNC fun = NULL; if (fun==NULL)

First, as others have said please obey the mailing list rules and turn of First, as others have said please obey the mailing list rules and turn off html, not everyone uses an html email client. Here is your code, formatted and with line numbers added. I also fixed one error: "y" should be "status". 1. fit0 <- coxph(Surv(futime, status) ~ x1 + x2 + x3, data = data0) 2. p

The survival package makes significant use of the "specials" argument of terms(), before calling model.frame; it is part of nearly every modeling function. The reason is that strata argments simply have to be handled differently than other things on the right hand side. Likewise for tt() and cluster(), though those are much less frequent. I now get "bug reports" from the

Hi everyone, We are looking for some data sets working with relative risk mortality. so, someone know where can I find the data.mgus dataset and the data.mgus? Using 1384 records from Minnesota. This data set are used in the : Robert A. Kyle, Terry M. Therneau, S. Vincent Rajkumar, Janice R. Offord, Dirk R. Larson, Matthew F. Plevak, and L. Joseph Melton III. A long-term study of prognosis in

Hi Terry, I take your question to mean how to label distinct rows of a data frame. If that is not your question please clarify. I found the row.match() function in the package prodlim that can be used to solve this. However since your request requires no additional dependencies I borrowed the relevant code from the row.match function. Here is some obfuscated code to provide your answer in one

I've moved nlme from Depends to Imports in my coxme package. However, a few of the examples for lmekin use one of the data sets from nlme. This is on purpose, to show how the results are the same and how they differ. If I use data(nlme::ergoStool) the data is not found, data(nlme:::ergoStool) does no better. If I add importFrom(nlme, "ergoStool") the error message is that

A problem has been pointed out by a French user of the survival package and I'm looking for a pointer. > options(OutDec= ",") > fit <- survfit(Surv(1:6 /2) ~ 1) > fit$time [1] NA 1 NA 2 NA 3 A year or two ago some test cases that broke survfit were presented to me. The heart of the problem was numbers that were almost identical, where table(x) and unique(x) gave

I tried to compare if cch() and coxph() can generate same result for same case cohort data Use the standard data in cch(): nwtco Since in cch contains the cohort size=4028, while ccoh.data size =1154 after selection, but coxph does not contain info of cohort size=4028. The rough estimate between coxph() and cch() is same, but the lower and upper CI and P-value are a little different. Can we