similar to: Direct adjusted survival?

Hello, I probably have a syntax error in trying to generate an expected survival curve from a weighted cox model, but I can't see it. I used the help sample code to generate a weighted model, with the addition of a "weights=albumin" argument (I only chose albumin because it had no missing values, not because of any real relevance). Below are my code with the resulting error

Hello, I wonder when I do coxph in R: coxph( Surv(start, stop, event) ~ x, data=test) If x is a categorical varible (1,2,3,4,5), should I creat four dummy varibles for it? if yes, how can I get the overall p value on x other than for each dummy variable? Thanks Lisa Wang Princess Margaret Hospital Phone 416 946 4501

Hi, I'm reading van Belle et al "Biostatistics" and trying to run a cox test using a dataset from: http://faculty.washington.edu/~heagerty/Books/Biostatistics/chapter16.html (Primary Biliary Cirrhosis data link at top of the page), I'm using the following code: --------------- start of code library(survival) liver <-

Dear R-users: I can not reproduce figure 4 of *Statistical Tables and Plots using S and LATEX* by Prof. Frank Harrell with the following code: rm(list=ls()) library(Hmisc) getHdata(pbc) attach(pbc) age.groups <- cut2(age, c(45,60)) g <- function(y) apply(y, 2, quantile, c(.25,.5,.75)) y <- with(pbc, cbind(Chol=chol,Bili=bili)) # You can give new column names that are not legal S names

The data set in R is wrong. I've found mistakes on 2 lines in a quick look. I don't know if the data is incorrect in the Appendix of Fleming and Harrington as well (someone seems to have borrowed my copy), which is where the data set appears to have been taken from, given all the "-9" codes in it. (Note, Tom Fleming originally got the data from me, so I'm fairly

Hi, When I run the following Cox proportional hazards model on the Mayo clinic's PBC data set (given in the "survival" package), the regression coefficients do not agree with the results presented in Table 4.6.3 (p. 195) of Fleming & Harrington's book. library(survival) data(pbc) ans.cox <- coxph(Surv(time, status) ~ log(bili) + log(alb) + age + log(protime) +

Among others, datam contains the columns: logconc, tm, dose, subj, bilirubin. None of these are factor variables. The following compartment models work (the first still has not converged after 100 interations): res1 <- nlme(logconc~p2+p3+log(dose/(exp(p1)-exp(p2))* (exp(-exp(p2)*tm)-exp(-exp(p1)*tm))),start=list(fixed=c(5,-2,-0.1)), fixed=list(p1+p2+p3~1),control=list(maxIter=100),

Dear All, reposting, because I did not find a solution, maybe someone could check the example below. It's taken from the help page of survdiff. Executing it, gives the error "Error in floor(temp) : Non-numeric argument to mathematical function" best regards, Heinz library(survival) ## Example from help page of survdiff ## Expected survival for heart transplant patients based

The survexp function can fail when called from another function. The "why" of this has me baffled, however. Here is a simple test case, using a very stripped down version of survexp: survexp.test <- function(formula, data, weights, subset, na.action, rmap, times, cohort=TRUE, conditional=FALSE, ratetable=survexp.us, scale=1, npoints, se.fit,

Hello, I'm attempting to use the ratetable argument to survexp in the survival package. I use the example from the ?survexp help page below, and then slightly modify it to produce an error. library(survival) data(pbc) #fit a model without any factors pfit1 <- coxph(Surv(time, status > 0) ~ trt + log(bili) + log(protime) + age + platelet, data=pbc) #this works as expected

This is a follow-up on my note of Saturday. Let me start with two important clarifications - I think this would be a nice addition, but I've had exactly one use for it in the 15+ years of developing the survival package. - I have a work around for the current case. Prioritize accordingly. The ideal would be to change survexp as follows: fit <- survexp( ~ gender,

survexp in survival5 doesn't seem to work for me. see below: > library(survival5) Attaching Package "package:survival5": The following object(s) are masked from package:base : sort.list > library(chron) > data(ratetables) > survexp(~ratetable(year=julian(6,1,1991), + sex=1,age=35*365.24),times=(0:30)/6*365.24) Error in as.character(as.date(c(min(R[, 3]),

Hi: I have a few clarification questions about the elements returned by the coxph function used in conjuction with a frailty term. I create the following group variable: group <- NULL group[id<50] <- 1 group[id>=50 & id<100] <- 2 group[id>=100 & id<150] <- 3 group[id>=150 & id<200] <- 4 group[id>=200 & id<250] <- 5 group[id>=250

Dear All, Does someone have, or know of survexp ratetables for european contries, especially Austria and Germany? I know only about slopop in the package relsurv. Thanks in advance Heinz T??chler

Hello, and thank you in advance. I would like to capture the expected survival from a coxph model for subjects in an observational study with recurrent events, but the survexp statement is failing due to memory. I am using R version 2.13.1 (2011-07-08) on Windows XP. My objective is to plot the fitted survival with the Kaplan-Meier plot. Below is the code with output and [unfortunately]

> Several changes in print.survfit, plot.survfit and seemingly in the structure > of ratetabels effect some of my syntax files. > Is there somewhere a documentation of these changes, besides the code itself? I agree, the Changelog.09 file is not as comprehensive as one would like. Specific comments: 1. The ratetables were recently changed to accomodate a new option. I thought

This is a really rookie question: when should i use TE110P ISDN PRI Card? -- Necati DEM?R --------------------------------------- -------------- next part -------------- An HTML attachment was scrubbed... URL: http://lists.digium.com/pipermail/asterisk-users/attachments/20100621/07d2917f/attachment.htm

Hello, I am interested in producing the expected number of events, in a recurring events setting. I am using the Andersen-Gill model, as fit by the function "coxph" in the package "survival." I need to produce expected numbers of events for a cohort, cumulatively, at several fixed times. My ultimate goal is: To fit an AG model to a reference sample, then use that fitted model

Hi, I would like to compare the hazard functions of two samples using the Cox proportional hazards model. For sample 1 I have individual time-to- event data. For sample 2 I don't have individual data, but grouped data that allows to obtain a hazard function. I am wondering if there is an R function that allows to obtain a hazard ratio of the two hazard funtions (under the

DeaR list I would like to know if there is a direct method to compute the expected remaining survival time for a subject having survived up to time t. survexp gives me the probabilty for subject S to survive up to day D Thanks -- Anne