File: C:/Program Files/R/R-4.4.0/library/survival/tests/coxsurv2.Rout.save
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> library(survival)
> #
> # Check that the survival curves from a Cox model with beta=0
> # match ordinary survival
> #
> # Aalen
> surv1 <- survfit(Surv(time,status) ~ sex, data=lung, stype=2)
> fit1 <- coxph(Surv(time, status) ~ age + strata(sex), data=lung, iter=0,
+ ties='breslow')
> fit1$var <- 0*fit1$var #sneaky, causes the extra term in the Cox variance
> # calculation to be zero
> surv2 <- survfit(fit1, stype=2)
> surv3 <- survfit(fit1)
>
> arglist <- c('n', 'time', 'n.risk','n.event', 'n.censor', 'surv', 'strata',
+ 'std.err', 'upper', 'lower')
> all.equal(unclass(surv1)[arglist], unclass(surv2)[arglist])
[1] TRUE
> all.equal(unclass(surv1)[arglist], unclass(surv3)[arglist])
[1] TRUE
>
>
> # Efron method
> surv1 <- survfit(Surv(time,status) ~ sex, data=lung, stype=2, ctype=2)
> surv2 <- survfit(fit1, ctype=2)
> all.equal(unclass(surv1)[arglist], unclass(surv2)[arglist])
[1] TRUE
>
> # Kaplan-Meier
> surv1 <- survfit(Surv(time,status) ~ sex, data=lung)
> surv2 <- survfit(fit1, stype=1)
> all.equal(unclass(surv1)[arglist], unclass(surv2)[arglist])
[1] TRUE
>
>
> # Now add some random weights
> rwt <- runif(nrow(lung), .5, 3)
> surv1 <- survfit(Surv(time,status) ~ sex, data=lung, stype=2, weight=rwt,
+ robust=FALSE)
> fit1 <- coxph(Surv(time, status) ~ age + strata(sex), data=lung, iter=0,
+ ties='breslow', weight=rwt, robust=FALSE)
> fit1$var <- 0*fit1$var #sneaky
> surv2 <- survfit(fit1, stype=2, ctype=1)
> surv3 <- survfit(fit1)
>
> all.equal(unclass(surv1)[arglist], unclass(surv2)[arglist])
[1] TRUE
> all.equal(unclass(surv1)[arglist], unclass(surv3)[arglist])
[1] TRUE
>
>
> # Efron method
> surv1 <- survfit(Surv(time,status) ~ sex, data=lung, stype=2, ctype=2,
+ weight=rwt, robust=FALSE)
> surv2 <- survfit(fit1, ctype=2, robust=FALSE)
> all.equal(unclass(surv1)[arglist], unclass(surv2)[arglist])
[1] TRUE
>
> # Kaplan-Meier
> surv1 <- survfit(Surv(time,status) ~ sex, data=lung, weight=rwt, robust=FALSE)
> surv2 <- survfit(fit1, stype=1, robust=FALSE)
> all.equal(unclass(surv1)[arglist], unclass(surv2)[arglist])
[1] TRUE
>
>
> proc.time()
user system elapsed
0.940 0.037 0.969