View source: R/plot.flexsurvreg.R
plot.flexsurvreg  R Documentation 
Plot fitted survival, cumulative hazard or hazard from a parametric model against nonparametric estimates to diagnose goodnessoffit. Alternatively plot a userdefined function of the model parameters against time.
## S3 method for class 'flexsurvreg' plot( x, newdata = NULL, X = NULL, type = "survival", fn = NULL, t = NULL, start = 0, est = TRUE, ci = NULL, B = 1000, cl = 0.95, col.obs = "black", lty.obs = 1, lwd.obs = 1, col = "red", lty = 1, lwd = 2, col.ci = NULL, lty.ci = 2, lwd.ci = 1, ylim = NULL, add = FALSE, ... )
x 
Output from 
newdata 
Data frame containing covariate values to produce fitted
values for. See If there are only factor covariates in the model, then KaplanMeier (or
nonparametric hazard...) curves are plotted for all distinct groups, and
by default, fitted curves are also plotted for these groups. To plot
KaplanMeier and fitted curves for only a subset of groups, use
If there are any continuous covariates, then a single population KaplanMeier curve is drawn. By default, a single fitted curve is drawn with the covariates set to their mean values in the data  for categorical covariates, the means of the 0/1 indicator variables are taken. 
X 
Alternative way to supply covariate values, as a model matrix.
See 
type 
Ignored if 
fn 
Custom function of the parameters to summarise against time. The
first two arguments of the function must be 
t 
Vector of times to plot fitted values for, see

start 
Lefttruncation points, see 
est 
Plot fitted curves ( 
ci 
Plot confidence intervals for fitted curves. By default, this is

B 
Number of simulations controlling accuracy of confidence
intervals, as used in 
cl 
Width of confidence intervals, by default 0.95 for 95% intervals. 
col.obs 
Colour of the nonparametric curve. 
lty.obs 
Line type of the nonparametric curve. 
lwd.obs 
Line width of the nonparametric curve. 
col 
Colour of the fitted parametric curve(s). 
lty 
Line type of the fitted parametric curve(s). 
lwd 
Line width of the fitted parametric curve(s). 
col.ci 
Colour of the fitted confidence limits, defaulting to the same as for the fitted curve. 
lty.ci 
Line type of the fitted confidence limits. 
lwd.ci 
Line width of the fitted confidence limits. 
ylim 
yaxis limits: vector of two elements. 
add 
If 
... 
Other options to be passed to 
Some standard plot arguments such as "xlim","xlab"
may not
work. This function was designed as a quick check of model fit. Users
wanting publicationquality graphs are advised to set up an empty plot with
the desired axes first (e.g. with plot(...,type="n",...)
), then use
suitable lines
functions to add lines.
If case weights were used to fit the model, these are used when producing nonparametric estimates of survival and cumulative hazard, but not for the hazard estimates.
C. H. Jackson chris.jackson@mrcbsu.cam.ac.uk
flexsurvreg
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