Plot method for the imputed data

Produces a plot of the observed and imputed values (with credible intervals) for the effect and cost outcomes from a Bayesian cost-effectiveness analysis model with two treatment arms, implemented using the function selection(), pattern(), hurdle() or lmdm(). The graphical layout is obtained from the functions contained in the package ggplot2 and ggthemes.

Usage

# S3 method for class 'missingHE'
plot(
  x,
  prob = c(0.025, 0.975),
  class = "scatter",
  outcome = "both",
  trt = "all",
  time_plot = NULL,
  theme = NULL,
  only.plot = TRUE,
  ...
)

Arguments

x: A missingHE object containing the results of the Bayesian model for cost-effectiveness analysis.
prob: A numeric vector of probabilities representing the upper and lower CI sample quantiles to be calculated and returned for the imputed values.
class: Type of the plot comparing the observed and imputed outcome data. Available choices are scatter (default), histogram and boxplot for a scatter, histogram or a boxplot of the observed and average imputed outcome data, respectively.
outcome: The outcome variables that should be displayed. Options are: both (default) for both effects and costs; effects or costs for the effects or costs separately.
trt: treatment group for which plots should be displayed. Choices include: all (default) for all groups; none for results across all groups; any character or numeric value denoting the treatment group name or index associated with the treatment variable in the original data set.
time_plot: Time point for which the graphs should be displayed.
theme: Type of ggplot theme among some pre-defined themes, mostly taken from the package ggthemes. For a full list of available themes see details.
only.plot: Logical. If only.plot = TRUE (default) only the plot is returned. When only.plot = FALSE, a list containing the plot object and the data is returned instead.
...: Additional parameters that can be provided to manage the output of plot.missingHE.

Value

A ggplot object containing the plots specified in the argument class.

Details

The function produces a plot of the observed and imputed effect and cost data in a two-arm based cost-effectiveness model implemented using the function selection(), pattern(), hurdle() or lmdm(). The purpose of this graph is to visually compare the outcome values for the fully-observed individuals with those imputed by the model for the missing individuals. For scatter plots, average imputed values are also associated with credible intervals specified in the argument prob. The argument theme allows to customise the graphical aspect of the plots generated by plot.missingHE and allows to choose among a set of possible pre-defined themes taken form the package ggthemes. For a complete list of the available character names for each theme and scheme set, see ggthemes and bayesplot.

References

Daniels, MJ. Hogan, JW. (2008) Missing Data in Longitudinal Studies: strategies for Bayesian modelling and sensitivity analysis, CRC/Chapman Hall.

Molenberghs, G. Fitzmaurice, G. Kenward, MG. Tsiatis, A. Verbeke, G. (2015) Handbook of Missing Data Methodology, CRC/Chapman Hall.

Author

Andrea Gabrio

Examples

# For examples see the function [selection()], [pattern()], [hurdle()] or [lmdm()].
#
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