plotEffects: Plotting time-varying effects from a risk regression model.

In riskRegression: Risk Regression Models and Prediction Scores for Survival Analysis with Competing Risks

Plotting time-varying effects from a risk regression model.

Description

Plot time-varying effects from a risk regression model.

Usage

plotEffects(
  x,
  formula,
  level,
  ref.line = TRUE,
  conf.int = 0.95,
  xlim,
  ylim,
  xlab = "Time",
  ylab = "Cumulative coefficient",
  col,
  lty,
  lwd,
  add = FALSE,
  legend,
  axes = TRUE,
  ...
)

Arguments

x	Fitted object obtained with one of ARR, LRR, riskRegression.
formula	A formula to specify the variable(s) whose regression coefficients should be plotted.
level	For categorical variables the level (group) whose contrast to the reference level (group) should be plotted.
ref.line	Logical. If TRUE then add a horizontal line at zero.
conf.int	Logical. If TRUE then add confidence limits. Can be controlled using smart arguments. See examples
xlim	See plot
ylim	See plot
xlab	See plot
ylab	See plot
col	A vector of colors for the regression coefficients.
lty	A vector of line types for the regression coefficients.
lwd	A vector of line thicknesses for the regression coefficients.
add	Logical. If TRUE then add lines to an existing plot.
legend	Logical. If TRUE then add a legend. Can be controlled using smart arguments. See examples.
axes	Logical. If FALSE then do not draw axes.
...	Used for transclusion of smart arguments for plot, axis. See function SmartControl from prodlim.

Author(s)

Thomas H. Scheike [e-mail]

Thomas A. Gerds [e-mail]

Examples

library(survival)
library(prodlim)
data(Melanoma)

fit.tarr <- ARR(Hist(time,status)~strata(sex),
                data=Melanoma,
                cause=1)
plotEffects(fit.tarr)

fit.tarr <- ARR(Hist(time,status)~strata(sex)+strata(invasion),
                data=Melanoma,
                cause=1,
                times=seq(800,3000,20))
plotEffects(fit.tarr,formula=~sex)
plotEffects(fit.tarr,formula=~invasion)
plotEffects(fit.tarr,
            formula=~invasion,
            level="invasionlevel.1")

## legend arguments are transcluded:
plotEffects(fit.tarr,
            formula=~invasion,
            legend.bty="b",
            legend.cex=1)

## and other smart arguments too:
plotEffects(fit.tarr,
	    formula=~invasion,
	    legend.bty="b",
axis2.las=2,
	    legend.cex=1)

riskRegression documentation built on Sept. 8, 2023, 6:12 p.m.