autoplot.survIDM: Visualization of objects of class 'survIDM' with ggplot2...

In survidm: Inference and Prediction in an Illness-Death Model

Description

It draws the estimated probabilities.

Usage

## S3 method for class 'survIDM'
autoplot(
  object = object,
  y = NULL,
  trans = "all",
  func = "distribution",
  conf = NULL,
  type = NULL,
  conftype = NULL,
  col = 1:6,
  confcol = 1:6,
  lty = 1,
  conflty = 2,
  xlab = "Time",
  ylab = NULL,
  ylim = NULL,
  xlim = NULL,
  interactive = FALSE,
  ...
)

Arguments

object	Object of survIDM class.
y	NULL
trans	The transition probabilities plotted. It is used only when the object is of class "AJ", "LIDA" "LM", "PLM", "LMAJ", "PLMAJ", "PAJ" and "tpIPCW". Possible options are "all" (default), "00", "01", "02", "11" or "12".
func	It is used only when the object is of class "soj" or "sojIPCW". The type of curve to be drawn ("distribution" or "survival"). Default to "distribution".
conf	Draw the confidence intervals into the plot. By default it is NULL, they are drawn if the "surv" object contains them.
type	The type of plot that should be drawn. See details par for possible options. Defaults to "s" for the draw be stair steps.
conftype	The type of plot that should be drawn for confidence intervals. See details par for possible options. Defaults to "s" for the draw be stair steps.
col	Vector of colors. Colors are used cyclically.
confcol	Vector of colors for the confidence intervals. Colors are used cyclically.
lty	The line type. Line types can either be specified as an integer (0 = blank, 1 = solid (default), 2 = dashed, 3 = dotted, 4 = dotdash, 5 = longdash, 6 = twodash). See details in par.
conflty	The line type for confidence intervals. Line types can either be specified as an integer (0 = blank, 1 = solid (default), 2 = dashed, 3 = dotted, 4 = dotdash, 5 = longdash, 6 = twodash).
xlab	A title for the x axis: see title.
ylab	A title for the y axis: see title.
ylim	The y limits of the plot.
xlim	The x limits of the plot.
interactive	Logical flag indicating if an interactive plot with plotly is produced.
...	Other options.

Value

A ggplot object, so you can use common features from ggplot2 package to manipulate the plot.

Author(s)

Luis Meira-Machado, Marta Sestelo and Gustavo Soutinho.

Examples

res <- tprob(survIDM(time1, event1, Stime, event) ~ 1, s = 0,
method = "AJ", conf = FALSE, data = colonIDM)
autoplot(res)
autoplot(res, trans = "02")

  res1 <- tprob(survIDM(time1, event1, Stime, event) ~ factor(sex), s = 365,
                method = "AJ", conf = FALSE, data = colonIDM)

  autoplot(res1, trans="02", ylim=c(0,0.5))


  res2 <- CIF(survIDM(time1, event1, Stime, event) ~ age, data = colonIDM,
              z.value = 56, conf = FALSE)

  autoplot(res2)


  res3 <- sojourn(survIDM(time1, event1, Stime, event) ~ factor(sex),
                  data = colonIDM, conf = FALSE, conf.level = 0.95)

  autoplot(res3)

survidm documentation built on June 25, 2021, 1:07 a.m.