The hardware and bandwidth for this mirror is donated by dogado GmbH, the Webhosting and Full Service-Cloud Provider. Check out our Wordpress Tutorial.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]dogado.de.

This document explains Survival Curves related plotting using {ggplot2} and {ggfortify}.

Plotting with survival package

{ggfortify} let {ggplot2} know how to draw survival curves. After loading {ggfortify}, you can use ggplot2::autoplot function for survfit objects.

library(ggfortify)
library(survival)
fit <- survfit(Surv(time, status) ~ sex, data = lung)
autoplot(fit)

plot of chunk unnamed-chunk-1

There are some options to change survival curve output. Use help(autoplot.survfit) (or help(autoplot.*) for any other objects) to check available options.

autoplot(fit, surv.linetype = 'dashed', conf.int = FALSE,
         censor.shape = '*', censor.size = 5, facets = TRUE, ncol = 2)

plot of chunk unnamed-chunk-2

autoplot(survfit(Surv(time, status) ~ 1, data = lung), surv.colour = 'orange', censor.colour = 'red')

plot of chunk unnamed-chunk-2

autoplot(survfit(Surv(time, status) ~ sex, data = lung), fun = 'event')

plot of chunk unnamed-chunk-2

d.coxph <- survfit(coxph(Surv(time, status) ~ sex, data = lung))
autoplot(d.coxph, surv.linetype = 'dashed', surv.colour = 'blue',
         conf.int.fill = 'dodgerblue3', conf.int.alpha = 0.5, censor = FALSE)

plot of chunk unnamed-chunk-2

Also, you can use autoplot for survival::aareg instance.

autoplot(aareg(Surv(time, status) ~ age + sex + ph.ecog, data = lung))

plot of chunk unnamed-chunk-3

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.