Hi Franck,
I am using the calibrate function from the package rms (4.2-1) with R (3.1.2)
in a Mac OS 10.10.1 environment .
With my previous configuration (other computer) the function calibrate worked
very well.
Unfortunately, now the calibrate function doesn’t work. Do you have an idea to
help me in order to solve this problem. The validate function works.
Thank you very much for your help
Kind regards,
Dewi
Please find bellow my code :
W =read.table("export_R_model_proba.txt",sep="\t",header=TRUE)
W= as.data.frame(W)
ls()
summary(W)
library(survival)
library(survplot)
library(rms)
library(SvyNom)
library(SvyNom)
library(survey)
f <- cph(Surv(OS_time_months, OS_event) ~ CT + VE + Nratio_rcd + log_LYPREOP +
log_LYPO , dist='lognormal',data=W,surv=T,dxy = TRUE,time.inc =48,x=TRUE,
y=TRUE)
f
Cox Proportional Hazards Model
cph(formula = Surv(OS_time_months, OS_event) ~ CT + VE + Nratio_rcd +
log_LYPREOP + log_LYPO, data = W, x = TRUE, y = TRUE, surv = T,
time.inc = 48, dist = "lognormal", dxy = TRUE)
Model Tests Discrimination
Indexes
Obs 241 LR chi2 42.15 R2 0.161
Events 179 d.f. 5 Dxy -0.283
Center -5.6749 Pr(> chi2) 0.0000 g 0.608
Score chi2 46.25 gr 1.837
Pr(> chi2) 0.0000
Coef S.E. Wald Z Pr(>|Z|)
CT -0.6056 0.1891 -3.20 0.0014
VE 0.4153 0.1640 2.53 0.0114
Nratio_rcd 0.6746 0.1778 3.79 0.0001
etc etc
plot(calibrate(f,u=48,method="boot",cmethod="KM",xlim=c(0,1),ylim=c(0,1),surv=T,m=33),xlim=c(0,1),ylim=c(0,1))
Erreur dans UseMethod("calibrate") :
pas de méthode pour 'calibrate' applicable pour un objet de classe "c('cph',
'rms', 'coxph')"
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