autoReg (version 0.3.3)

adjustedPlot: Draw an expected plot

Description

Draw an expected plot

Usage

adjustedPlot(
  fit,
  xnames = NULL,
  pred.values = list(),
  newdata = NULL,
  maxy.lev = 5,
  median = TRUE,
  facet = NULL,
  se = FALSE,
  mark.time = FALSE,
  show.median = FALSE,
  type = "ggplot",
  ...
)

Value

A ggplot or no return value(called for side effects)

Arguments

fit

An object of class "coxph" or "survreg"

xnames

Character Names of explanatory variable to plot

pred.values

A list A list of predictor values

newdata

A data.frame or NULL

maxy.lev

Integer Maximum unique length of a numeric variable to be treated as categorical variables

median

Logical

facet

Character Name of facet variable

se

logical Whether or not show se

mark.time

logical Whether or not mark time

show.median

logical

type

Character plot type

...

further arguments to be passed to plot.survfit

Examples

library(survival)
fit=coxph(Surv(time,status)~rx+logWBC,data=anderson)
adjustedPlot(fit)
adjustedPlot(fit,xnames="rx",se=TRUE,type="plot")
adjustedPlot(fit,xnames="rx",se=TRUE)
if (FALSE) {
anderson$WBCgroup=ifelse(anderson$logWBC<=2.73,0,1)
anderson$WBCgroup=factor(anderson$WBCgroup,labels=c("low","high"))
anderson$rx=factor(anderson$rx,labels=c("treatment","control"))
fit=coxph(Surv(time,status)~rx,data=anderson)
adjustedPlot(fit,xnames=c("rx"),show.median=TRUE)
fit=coxph(Surv(time,status)~rx*WBCgroup,data=anderson)
adjustedPlot(fit,xnames=c("rx","WBCgroup"),show.median=TRUE)
adjustedPlot(fit,xnames=c("rx","WBCgroup"),facet="WBCgroup",show.median=TRUE)
data(cancer,package="survival")
fit=coxph(Surv(time,status)~rx+strata(sex)+age+differ,data =colon)
adjustedPlot(fit,xnames=c("sex"))
adjustedPlot(fit,xnames=c("sex"),pred.values=list(age=58,differ=3))
adjustedPlot(fit,xnames=c("sex","rx"),facet="sex")
adjustedPlot(fit,xnames=c("rx","sex","differ"),facet=c("sex","rx"),se=TRUE)
fit <- coxph(Surv(start, stop, event) ~ rx + number + size+ cluster(id), data = bladder2)
adjustedPlot(fit,xnames=c("rx","number","size"),facet=c("rx","size"),maxy.lev=8)
}