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Last data update: 2014.03.03

R: Graphical Test of Proportional Hazards using ggplot2

ggcoxzph

R Documentation

Graphical Test of Proportional Hazards using ggplot2

Description

Displays a graph of the scaled Schoenfeld residuals, along with a smooth curve using ggplot2. Wrapper around plot.cox.zph.

Usage

ggcoxzph(fit, resid = TRUE, se = TRUE, df = 4, nsmo = 40, var,
  point.col = "red", point.size = 1, point.shape = 19, point.alpha = 1,
  font.main = c(16, "plain", "black"), font.x = c(14, "plain", "black"),
  font.y = c(14, "plain", "black"), font.tickslab = c(12, "plain", "black"),
  ggtheme = theme_classic2())

## S3 method for class 'ggcoxzph'
print(x, ...)

Arguments

`fit`	an object of class cox.zph.
`resid`	a logical value, if TRUE the residuals are included on the plot, as well as the smooth fit.
`se`	a logical value, if TRUE, confidence bands at two standard errors will be added.
`df`	the degrees of freedom for the fitted natural spline, df=2 leads to a linear fit.
`nsmo`	number of points used to plot the fitted spline.
`var`	the set of variables for which plots are desired. By default, plots are produced in turn for each variable of a model.
`point.col, point.size, point.shape, point.alpha`	color, size, shape and visibility to be used for points.
`font.main, font.x, font.y, font.tickslab`	a vector of length 3 indicating respectively the size (e.g.: 14), the style (e.g.: "plain", "bold", "italic", "bold.italic") and the color (e.g.: "red") of main title, xlab and ylab and axis tick labels, respectively. For example font.x = c(14, "bold", "red"). Use font.x = 14, to change only font size; or use font.x = "bold", to change only font face.
`ggtheme`	function, ggplot2 theme name. Default value is survminer::theme_classic2(). Allowed values include ggplot2 official themes: theme_gray(), theme_bw(), theme_minimal(), theme_classic(), theme_void(), ....
`x`	an object of class ggcoxzph
`...`	further arguments passed to print, but really it's unused

Value

Returns an object of class ggcoxzph which is a list of ggplots.

Functions

ggcoxzph: Graphical Test of Proportional Hazards using ggplot2.

Author(s)

Marcin Kosinski , m.p.kosinski@gmail.com

Examples


library(survival)
fit <- coxph(Surv(futime, fustat) ~ age + ecog.ps, data=ovarian)
cox.zph.fit <- cox.zph(fit)
ggcoxzph(cox.zph.fit)