R version 4.4.0 beta (2024-04-15 r86425 ucrt) -- "Puppy Cup" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(survival) > aeq <- function(x,y) all.equal(as.vector(x), as.vector(y)) > options(na.action=na.exclude) > # > # More tests of factors in prediction, using a new data set > # > fit <- coxph(Surv(time, status) ~ factor(ph.ecog), lung) > > tdata <- data.frame(ph.ecog = factor(0:3)) > p1 <- predict(fit, newdata=tdata, type='lp') > p2 <- predict(fit, type='lp') > aeq(p1, p2[match(0:3, lung$ph.ecog)]) [1] TRUE > > fit2 <- coxph(Surv(time, status) ~ factor(ph.ecog) + factor(sex), lung) > tdata <- expand.grid(ph.ecog = factor(0:3), sex=factor(1:2)) > p1 <- predict(fit2, newdata=tdata, type='risk') > > xdata <- expand.grid(ph.ecog=factor(1:3), sex=factor(1:2)) > p2 <- predict(fit2, newdata=xdata, type='risk') > all.equal(p2, p1[c(2:4, 6:8)], check.attributes=FALSE) [1] TRUE > > > fit3 <- survreg(Surv(time, status) ~ factor(ph.ecog) + age, lung) > tdata <- data.frame(ph.ecog=factor(0:3), age=50) > predict(fit, type='lp', newdata=tdata) 1 2 3 4 0.0000000 0.3688401 0.9163870 2.2079803 > predict(fit3, type='lp', newdata=tdata) 1 2 3 4 6.399571 6.142938 5.770523 4.916993 > > proc.time() user system elapsed 0.81 0.06 0.85