plot.squire_simulation: squire simulation plot

In mrc-ide/squire: SEIR transmission model of COVID-19

squire simulation plot

Description

squire simulation plot

Usage

## S3 method for class 'squire_simulation'
plot(
  x,
  var_select = NULL,
  replicates = FALSE,
  summarise = TRUE,
  ci = TRUE,
  q = c(0.025, 0.975),
  summary_f = mean,
  x_var = "t",
  particle_fit = FALSE,
  ...
)

Arguments

x	An squire_simulation object
var_select	Vector of variable names to plot (default is all)
replicates	Plot replicates
summarise	Logical, add summary line
ci	logical add confidence interval ribbon
q	Quantiles for upper and lower of interval ribbon
summary_f	Function to summarise each compartment passed to the fun argument of stat_summary
x_var	X variable to use for plotting (default is "t", but can be set to, "date", if date_0 provided), which will cause the date to be plotted rather than time.
particle_fit	If the squire_simulation provided is the result of running the particle filter, do we want to just plot the fit. Default = FALSE
...	additional arguments affecting the plot produced.

mrc-ide/squire documentation built on Sept. 10, 2022, 1:11 a.m.