svykm: Estimate survival function.

In bschneidr/fastsurvey: Analysis of Complex Survey Samples

Estimate survival function.

Description

Estimates the survival function using a weighted Kaplan-Meier estimator.

Usage

svykm(formula, design,se=FALSE, ...)
## S3 method for class 'svykm'
plot(x,xlab="time",ylab="Proportion surviving",
  ylim=c(0,1),ci=NULL,lty=1,...)
## S3 method for class 'svykm'
lines(x,xlab="time",type="s",ci=FALSE,lty=1,...)
## S3 method for class 'svykmlist'
plot(x, pars=NULL, ci=FALSE,...)
## S3 method for class 'svykm'
quantile(x, probs=c(0.75,0.5,0.25),ci=FALSE,level=0.95,...)
## S3 method for class 'svykm'
confint(object,parm,level=0.95,...)

Arguments

formula	Two-sided formula. The response variable should be a right-censored Surv object
design	survey design object
se	Compute standard errors? This is slow for moderate to large data sets
...	in plot and lines methods, graphical parameters
x	a svykm or svykmlist object
xlab, ylab, ylim, type	as for plot
lty	Line type, see par
ci	Plot (or return, forquantile) the confidence interval
pars	A list of vectors of graphical parameters for the separate curves in a svykmlist object
object	A svykm object
parm	vector of times to report confidence intervals
level	confidence level
probs	survival probabilities for computing survival quantiles (note that these are the complement of the usual quantile input, so 0.9 means 90% surviving, not 90% dead)

Details

When standard errors are computed, the survival curve is actually the Aalen (hazard-based) estimator rather than the Kaplan-Meier estimator.

The standard error computations use memory proportional to the sample size times the square of the number of events. This can be a lot.

In the case of equal-probability cluster sampling without replacement the computations are essentially the same as those of Williams (1995), and the same linearization strategy is used for other designs.

Confidence intervals are computed on the log(survival) scale, following the default in survival package, which was based on simulations by Link(1984).

Confidence intervals for quantiles use Woodruff's method: the interval is the intersection of the horizontal line at the specified quantile with the pointwise confidence band around the survival curve.

Value

For svykm, an object of class svykm for a single curve or svykmlist for multiple curves.

References

Link, C. L. (1984). Confidence intervals for the survival function using Cox's proportional hazards model with covariates. Biometrics 40, 601-610.

Williams RL (1995) "Product-Limit Survival Functions with Correlated Survival Times" Lifetime Data Analysis 1: 171–186

Woodruff RS (1952) Confidence intervals for medians and other position measures. JASA 57, 622-627.

See Also

predict.svycoxph for survival curves from a Cox model

Examples

data(pbc, package="survival")
pbc$randomized <- with(pbc, !is.na(trt) & trt>0)
biasmodel<-glm(randomized~age*edema,data=pbc)
pbc$randprob<-fitted(biasmodel)

dpbc<-svydesign(id=~1, prob=~randprob, strata=~edema, data=subset(pbc,randomized))

s1<-svykm(Surv(time,status>0)~1, design=dpbc)
s2<-svykm(Surv(time,status>0)~I(bili>6), design=dpbc)

plot(s1)
plot(s2)
plot(s2, lwd=2, pars=list(lty=c(1,2),col=c("purple","forestgreen")))

quantile(s1, probs=c(0.9,0.75,0.5,0.25,0.1))

s3<-svykm(Surv(time,status>0)~I(bili>6), design=dpbc,se=TRUE)
plot(s3[[2]],col="purple")

confint(s3[[2]], parm=365*(1:5))
quantile(s3[[1]], ci=TRUE)

bschneidr/fastsurvey documentation built on March 13, 2024, 11:12 a.m.