rpact: Confirmatory Adaptive Clinical Trial Design and Analysis


plot.AnalysisResults {rpact}R Documentation

Analysis Results Plotting

Description

Plots the conditional power together with the likelihood function.

Usage

## S3 method for class 'AnalysisResults'
plot(x, y, ..., type = 1L,
  nPlanned = NA_real_, stage = x$getNumberOfStages(),
  allocationRatioPlanned = NA_real_, main = NA_character_,
  xlab = NA_character_, ylab = NA_character_, legendTitle = "",
  palette = "Set1", legendPosition = NA_integer_, showSource = FALSE)

Arguments


x

The analysis results at given stage, obtained from getAnalysisResults.

y

Not available for this kind of plot (is only defined to be compatible to the generic plot function).

...

Optional ggplot2 arguments. Furthermore the following arguments can be defined:

  • thetaRange: A range of assumed effect sizes if testing means or a survival design was specified. Additionally, if testing means was selected, an assumed standard deviation can be specified (default is 1).

  • piRange: A range of assumed rates pi1 to calculate the conditional power. Additionally, if a two-sample comparison was selected, pi2 can be specified (default is the value from getAnalysisResults).

  • directionUpper: The direction of one-sided testing. Default is directionUpper = TRUE which means that larger values of the test statistics yield smaller p-values.

  • thetaH0: The null hypothesis value, default is 0 for the normal and the binary case, it is 1 for the survival case. For testing a rate in one sample, a value thetaH0 in (0,1) has to be specified for defining the null hypothesis H0: pi = thetaH0.

type

The plot type (default = 1). Note that at the moment only one type (the conditional power plot) is available.

nPlanned

The sample size planned for the subsequent stages. It should be a vector with length equal to the remaining stages and is the overall sample size in the two treatment groups if two groups are considered.

stage

The stage number (optional). Default: total number of existing stages in the data input used to create the analysis results.

allocationRatioPlanned

The allocation ratio n1/n2 for two treatment groups planned for the subsequent stages, the default value is 1.

main

The main title, default is "Dataset".

xlab

The x-axis label, default is "Stage".

ylab

The y-axis label.

legendTitle

The legend title, default is "".

palette

The palette, default is "Set1".

legendPosition

The position of the legend. By default (NA_integer_) the algorithm tries to find a suitable position. Choose one of the following values to specify the position manually:

  • 0: legend position outside plot

  • 1: legend position left top

  • 2: legend position left center

  • 3: legend position left bottom

  • 4: legend position right top

  • 5: legend position right center

  • 6: legend position right bottom

showSource

If TRUE, the parameter names of the object will be printed which were used to create the plot; that may be, e.g., useful to check the values or to create own plots with plot.

Details

The conditional power is calculated only if effect size and sample size is specified.

Examples


design <- getDesignGroupSequential(kMax = 2)

dataExample <- getDataset(
    n = c(20, 30),
	   means = c(50, 51),
	   stDevs = c(130, 140)
)

result <- getAnalysisResults(design = design, 
	   dataInput = dataExample, thetaH0 = 20, 
	   nPlanned = c(30), thetaH1 = 1.5, stage = 1) 

if (require(ggplot2)) plot(result, thetaRange = c(0, 100))


[Package rpact version 2.0.5 Index | www.rpact.org]