Usage
## S3 method for class 'survfit':
autoplot(object, ..., xLab = "Time", yLab = "Survival",
title = "Marks show times with censoring", titleSize = 15,
axisTitleSize = 15, axisLabSize = 10, survLineSize = 0.5,
type = c("single", "CI", "fill"), palette = c("Dark2", "Set2", "Accent",
"Paired", "Pastel1", "Pastel2", "Set1", "Set3"), jitter = c("none",
"noEvents", "all"), censShape = 3, censSize = 5, legend = TRUE,
legLabs = NULL, legTitle = "Strata", legTitleSize = 10,
legLabSize = 10, alpha = 0.05, CIline = 10, fillLineSize = 0.05,
pVal = FALSE, sigP = 1, pX = 0.1, pY = 0.1, timeTicks = c("major",
"minor"), tabTitle = "Number at risk by time", tabTitleSize = 15,
tabLabSize = 5, nRiskSize = 5)Arguments
object
An object of class survfit.
...
Additional arguments (not implemented).
xLab
Label for $x$ axis on survival plot.
yLab
Label for $y$ axis on survival plot.
title
Title for survival plot.
titleSize
Title size for survival plot.
axisTitleSize
Title size for axes.
axisLabSize
Title size for label axes.
survLineSize
Survival line size.
type
Type of plot. The default, type="single", plots single lines.
- If
type="CI"will add lines indicating
confidence intervals (taken fromupperandlowervalues ofsurvfitobject).
Highe
palette
Options are taken from
http://colorbrewer2.org/{color_brewer}.
palette="Dark2"(the default) is recommended forsingleorCIplots.palette="Set2"is recommended forfill
jitter
By default, jitter="none".
- If
jitter="noEvents", adds some random, positive noise
to survival lines with no events (i.e. all observations censored).
This will bring them just above 1 on the y-axis, making them easier to se
legend
If legend=FALSE, no legends will be produced
for the plot or table.
legLabs
These can be used to replace the names
of the strata from the fit.
Should be given in the same order as those strata.
legTitle
Title for legend.
legTitleSize
Title size for legend.
legLabSize
Legend labels width and height.
alpha
Alpha, the transparency of lines indicating confidence intervals
or filled rectangles. Should be in the range $0$ to $1$.
Larger values e.g. alpha=0.7 are recommended for confidence
intervals.
censShape
Shape of marks to indicate censored onservations.
Default is 3 which gives vertical ticks.
Use censShape=10 for circular marks.
censSize
Size of marks to indicate censored onservations.
CIline
Confidence interval line type.
fillLineSize
Line size surrouding filled boxes.
pVal
If pVal=TRUE, adds $p$ value from
log-rank test to plot
sigP
No. of significant digits to display in $p$ value.
Typically $1$ to $3$.
pX
Location of $p$ value on $x$ axis.
Should be in the range of $0$ to $1$.
The location is relative to the maximum observed time.
E.g. pX = 0.5 will place it half-way along the $x$-axis.
pY
Location of $p$ value on $y$ axis.
Should be in the range of $0 - 1$, as above
timeTicks
Numbers to mark on the survival plot and table.
- If
timeTicks="major"(the default)
only the major$x$-axis (time) marks from the
survival plot are are labelled on the plot and table. - If
timeTicks="minor"
tabTitleSize
Table title text size.
tabLabSize
Table legend text size.
nRiskSize
Number at risk - text size.