plot.amis: Plot histogram or credible interval of weighted distributions...

In AMISforInfectiousDiseases: Implement the AMIS Algorithm for Infectious Disease Models

Plot histogram or credible interval of weighted distributions given a model fitted by amis()

Description

Plot histogram or credible interval of weighted distributions given a model fitted by amis()

Usage

## S3 method for class 'amis'
plot(
  x,
  what = "prev",
  type = "hist",
  locations = 1,
  time = 1,
  measure_central = "mean",
  order_locations_by = NULL,
  display_location_names = FALSE,
  alpha = 0.05,
  breaks = 500,
  cex = 1,
  lwd = 1,
  xlim = NULL,
  main = NULL,
  xlab = NULL,
  ylab = NULL,
  ...
)

Arguments

x	The output from the function amis().
what	What posterior distribution should be plotted. It can be "prev" (default) for plotting prevalences, or one of the parameter names.
type	Type of plot. It can be "hist" (default) for histogram, or "CI" for credible intervals
locations	Integer vector or location names identifying locations the plots are made for. Default to 1 (first location).
time	Integer index identifying the timepoint. Default to 1.
measure_central	Measure of central tendency for credible interval plots. It can be "mean" (default) or "median".
order_locations_by	How the credible intervals of multiple locations should be ordered. If NULL (default), locations are displayed according to the argument "locations". Otherwise, it must be either "prev" or one of the parameter names, and then the locations are ranked by the corresponding measure of central tendency.
display_location_names	Logical indicating whether location names are to be shown or not in credible interval plots. Default to FALSE.
alpha	Numeric value between 0 and 1 indicating the endpoints of the credible intervals, which are evaluated at (alpha/2, 1-alpha/2)% quantiles. Default (0.05) will create 95% credible intervals.
breaks	Argument passed to wtd.hist() for histogram plots. Default to 500.
cex	Argument passed to plots of credible intervals. Default to 1.
lwd	Argument passed to plots of credible intervals. Default to 1.
xlim	The x limits of the plots. For for credible intervals of multiple statistics (i.e. length(what)>1), it must be either NULL or a list with the x limits for each statistic. Default to NULL.
main	Title for the plot.
xlab	Lable for the x axis.
ylab	Lable for the y axis.
...	Other graphical parameters passed to wtd.hist().

Details

For illustrative examples, see amis().

Value

A plot.

AMISforInfectiousDiseases documentation built on April 4, 2025, 1:45 a.m.