Add Lines or Points to a Survival Plot
Often used to add the expected survival curve(s) to a Kaplan-Meier plot
generated with plot.survfit.
## S3 method for class 'survfit'
lines(x, type="s", pch=3, col=1, lty=1,
lwd=1, cex=1, mark.time=FALSE, xmax,
fun, conf.int=FALSE,
conf.times, conf.cap=.005, conf.offset=.012,
conf.type = c("log", "log-log", "plain", "logit", "arcsin"),
mark, noplot="(s0)", cumhaz= FALSE, ...)
## S3 method for class 'survexp'
lines(x, type="l", ...)
## S3 method for class 'survfit'
points(x, fun, censor=FALSE, col=1, pch,
noplot="(s0)", cumhaz=FALSE, ...)x |
a survival object, generated from the |
type |
the line type, as described in |
col, lty, lwd, cex |
vectors giving the mark symbol, color, line type, line width and
character size for the added curves. Of this set only color is
applicable to |
pch |
plotting characters for points, in the style of
|
mark |
a historical alias for |
censor |
should censoring times be displayed for the |
mark.time |
controls the labeling of the curves.
If |
xmax |
optional cutoff for the right hand of the curves. |
fun |
an arbitrary function defining a transformation of the survival curve.
For example |
conf.int |
if |
conf.times |
optional vector of times at which to place a confidence bar on the curve(s). If present, these will be used instead of confidence bands. |
conf.cap |
width of the horizontal cap on top of the confidence bars; only used if conf.times is used. A value of 1 is the width of the plot region. |
conf.offset |
the offset for confidence bars, when there are multiple curves on the plot. A value of 1 is the width of the plot region. If this is a single number then each curve's bars are offset by this amount from the prior curve's bars, if it is a vector the values are used directly. |
conf.type |
One of |
noplot |
for multi-state models, curves with this label will not be plotted. The default corresponds to an unspecified state. |
cumhaz |
plot the cumulative hazard, rather than the survival or probability in state. |
... |
other graphical parameters |
When the survfit function creates a multi-state survival curve
the resulting object has class ‘survfitms’. The only difference in
the plots is that that it defaults to a curve that goes from lower
left to upper right (starting at 0), where survival curves default
to starting at 1 and going down. All other options are identical.
If the user set an explicit range in an earlier plot.survfit
call, e.g. via xlim or xmax, subsequent calls to
this function remember the right hand cutoff. This memory can be
erased by options(plot.survfit) <- NULL.
a list with components x and y, containing the coordinates of the
last point on each of the curves (but not of the confidence limits).
This may be useful for labeling.
one or more curves are added to the current plot.
lines, par, plot.survfit, survfit, survexp.
fit <- survfit(Surv(time, status==2) ~ sex, pbc,subset=1:312)
plot(fit, mark.time=FALSE, xscale=365.25,
xlab='Years', ylab='Survival')
lines(fit[1], lwd=2) #darken the first curve and add marks
# Add expected survival curves for the two groups,
# based on the US census data
# The data set does not have entry date, use the midpoint of the study
efit <- survexp(~sex, data=pbc, times= (0:24)*182, ratetable=survexp.us,
rmap=list(sex=sex, age=age*365.35, year=as.Date('1979/01/01')))
temp <- lines(efit, lty=2, lwd=2:1)
text(temp, c("Male", "Female"), adj= -.1) #labels just past the ends
title(main="Primary Biliary Cirrhosis, Observed and Expected")Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.