plotSMC: Plot result of SMC

In sbfnk/fitR: Tool box for fitting dynamic infectious disease models to time series

Plot result of SMC

Description

Plot the observation generated by the filtered trajectories together with the data.

Usage

plotSMC(
  smc,
  fitmodel,
  theta,
  data = NULL,
  summary = TRUE,
  alpha = 1,
  allVars = FALSE,
  plot = TRUE
)

Arguments

smc	output of particleFilter
fitmodel	a fitmodel object
theta	named numeric vector. Values of the parameters. Names should match fitmodel$thetaNames.
data	data frame. Observation times and observed data. The time column must be named as given by timeColumn, whereas the name of the data column should match one of fitmodel$stateNames.
summary	logical. If TRUE, the mean, median as well as the 50th and 95th percentile of the trajectories are plotted (default). If FALSE, all individual trajectories are plotted (transparency can be set with alpha).
alpha	transparency of the trajectories (between 0 and 1).
allVars	logical, if FALSE only the observations are plotted. Otherwise, all state variables are plotted.
plot	if TRUE the plot is displayed, and returned otherwise.

See Also

particleFilter

sbfnk/fitR documentation built on July 18, 2023, 3:28 p.m.