search for: cmprsk

Hi all I do not understand why I am getting the following error message. Can anybody help me with this? Thanks in advance. install.packages("cmprsk") library(cmprsk) result1 <-crr(ftime, fstatus, cov1, failcode=1, cencode=0 ) one.pout1 = predict(result1,cov1,X=cbind(1,one.z1,one.z2)) predict.crr(result1,cov1,X=cbind(1,one.z1,one.z2)) Error: could not find function "predict.crr" [[alternative HTML version deleted]]

Dear R-help list members, I am trying to create my own axes when plotting a cumulative incidence curve using the plot.cuminc function in the CMPRSK library. The default x-axis places tick marks and labels at 0, 20, 40, 60, and 80 (my data has an upper limit of 96), whereas I want them at my own specified locations. Here is my example code: library(cmprsk) attach(MYDATA) MYCUMINC <- cuminc(ftime=TIME,fstatus=STATUS,group=GROUP,rho=0,c...

Dear Prof Gray and everyone, As our package developers discussed about incompatibility between Design and survival packages, I faced another problem with cmprsk- a survival dependent packacge. The problem is exactly similar to what happened to the Design package that when I just started running cuminc function, R was suddenly closed. These incidents suggest that maybe many other survival dependent packages being involved the problem Could you please consid...

Dear R users, I d like to assess the effect of "treatment" covariate on a disease relapse risk with the package cmprsk. However, the effect of this covariate on survival is time-dependent (assessed with cox.zph): no significant effect during the first year of follow-up, then after 1 year a favorable effect is observed on survival (step function might be the correct way to say that ?). For overall survival analysi...

------------------------------ On Sat, May 16, 2015 8:04 AM BST Uwe Ligges wrote: >Not sure why this goes to R-devel. You just could have asked the >maintainer. Terry Therneau is aware of it and promised he will fix it. > The quickest fix is to add cmprsk to the recommended list , and that's is an R-devel issue. >On 16.05.2015 07:22, Hin-Tak Leung wrote: >> 'make check-all' for current R has been showing this error in the middle >> for a few months now - any thought on fixing this? I think cmprsk >> should be either...

...lippe G ----- Message d'origine ---- De : Arthur Allignol <arthur.allignol@fdm.uni-freiburg.de> À : Philippe Guardiola <allogreffe@yahoo.fr> Cc : R-help@r-project.org; phguardiol@aol.com Envoyé le : Vendredi, 22 Août 2008, 11h53mn 42s Objet : Re: [R] Help on competing risk package cmprsk with time dependent covariate Hello, Something i don't understand in your question. Is treatment a time-dependent covariate? That is, do patients receive the treatment at the beginning of the study or later? cmprsk cannot handle time-dependent covariates. But if treatment is a baseline cova...

Dear R users, I d like to assess the effect of "treatment" covariate on a disease relapse risk with the package cmprsk. However, the effect of this covariate on survival is time-dependent (assessed with cox.zph): no significant effect during the first year of follow-up, then after 1 year a favorable effect is observed on survival (step function might be the correct way to say that ?). For overall survival analys...

I am trying to use the crr function in the cmprsk package to analyze a large patient dataset (45000 +), The model has 100 + covariates and 5 competing risks. I am finding that R seems to get bogged down and even if I let it run for several hours I don't get anything back. Am I expecting too much, or are there ways to speed up the process? Any...

Hi, To use cuminc() from cmprsk package, if a subject has 2 events (both the event of interest and the event of competing risk), should I create 2 observations for this subject in the dataset, one for each event with different fstatus (1 and 2), or just 1 observation with whatever event that happened first? My analysis object...

hello,everyone: I am now confused in multistate survival , when I want to poccess a multistate survival analysis, I turn to R and the package 'mstate' and packege 'cmprsk'. When I come to publishing the article. Follow requirement of the magzine, the statistic is carry out in LTA package (which was said to be a authority in intauterine from WHO) . There we found difference in the results(incidence ratio or survival function) computed by the two software. I al...

Dear R-community, I would like to plot the numbers at risk for the different causes of failure at specific timepoints below a cumulative incidence function plot (plot.cuminc-function, cmprsk-package). For a Kaplan-Meier plot I know this is possible with the n.risk-argument in the survplot-function (rms-package), but to my knowledge no such readily-available functions are available for competing risks approaches. I am not very experienced with programming, so any advice on how to do thi...

'make check-all' for current R has been showing this error in the middle for a few months now - any thought on fixing this? I think cmprsk should be either included in the recommended bundle, or the survival vignette to not depend on it. Having 'make check-all' showing glaring ERROR's for a few months seems to defeat the purpose of doing any checking at all via 'make check-all'. FWIW, I did look at when/how the is...

Hi all, I am aware that crr lacks the "friendly" command structure of functions such as cph. All is clear to me about including covariates until I want to include a stratification term in the competing risk framework (no nice strat command). I am still a bit of a novice in R - I am looking for an example to help me with this, but can't seem to find one. Any advice appreciated (no

Hi, I need to fit model using crr, however my covariate is categorical with 3 levels. I use crr(time,status,agesplit,failcode=1,cencode=0) where agesplit is defined as <20,21-29,>30 years, so it takes 0, 1 or 2 for each patient. I hoped to get estimated coefficients for the levels 1 and 2 w.r.t level 0 as in coxph. But, I didn't. Could someone please help me to use crr in this

...------------------ >> On Sat, May 16, 2015 8:04 AM BST Uwe Ligges wrote: >> >> Not sure why this goes to R-devel. You just could have asked the >> maintainer. Terry Therneau is aware of it and promised he will fix it. >> >> >> The quickest fix is to add cmprsk to the recommended list , and that's is an R-devel issue. > > >Actually, the easiest solution would be for Terry to either modify relevant code according to: > >? http://cran.r-project.org/doc/manuals/r-release/R-exts.html#Suggested-packages > >or perhaps better, as noted,...

Dear R-users Has anybody implemented a function/package that will compute an individual's risk of an event in the presence of competing risks, adjusted for the individual's covariates? The only thing that seems to come close is the cuminc function from cmprsk package, but I would like to adjust for more than one covariate (it allows you to stratify by a single grouping vector). Any help/tips will be extremely appreciated. Eleni Rapsomaniki Research Associate Cambridge [[alternative HTML version deleted]]

Hi All, I'm trying to figure out the cumulative incidence curve in R in some limited time. I found in package "cmprsk", the command "plot.cuminc" can get this curve. But I noticed that there is no mark for the censored time there, comparing with the KM curve by "plot.survfit". Here are my codes (attached is the data): ---------------- dat<-read.table("F://wendy/BMT data analys...

Hi, I am wondering if anyone can explain to me if cumulative incidence (CI) is just "1 minus kaplan-Meier survival"? Under what circumstance, you should use cumulative incidence vs KM survival? If the relationship is just CI = 1-survival, then what difference it makes to use one vs. the other? And in R how I can draw a cumulative incidence plot. I know I can make a Kaplan-Meier

I get a warning about "1 warning message" using R CMD check on the survival library. It comes from the code snippet: if (library(cmprsk, logical.return=TRUE)) { # further test of competing risks from survfit . . } This is a very useful additional test when I'm checking any changes to the affected code, so I like having this in my test suite even though it doesn't run automatically. This argues for a change in library...

...ment I m > evaluating the effect) or from events unrelated to the > disease or the treatments (elderly patients). > Therefore, to analyze the effect of my covariate of interest > on disease free survival and relapse incidence, I d like to > use a competing risk model such as the Gray CMPRSK. > > However, I cannot have multiple "lines" for the same patient > (cluster function is not allowed in CMPRSK) with this package > (for time dep covariates I need 1 or 2 lines with same Id /UPN). > > Does anyone knows how can I manage this in CMPRSK ? > > Any help...