plot-fitsir-missing-method: Plot a fitsir object

In bbolker/fitsir: SIR fitting tools

Description

Plot a fitsir object

Usage

## S4 method for signature 'fitsir,missing'
plot(x, level, method = c("delta", "mvrnorm",
  "wmvrnorm"), main, xlim, ylim, xlab, ylab, add = FALSE,
  col.traj = "black", lty.traj = 1, col.conf = "red", lty.conf = 4,
  ...)

Arguments

x	fitsir object
level	the confidence level required
method	confidence interval method
main	an overall title for the plot
xlim	the x limit of the plot
ylim	the y limit of the plot
xlab	a label for the x axis
ylab	a label for the y axis
add	(logical) add to an existing plot?
col.traj	colour of the estimated trajectory
lty.traj	line type of the estimated trajectory
col.conf	colour of the confidence intervals
lty.conf	line type of the confidence intervals
...	additional arguments to be passed on to the plot function

Examples

harbin2 <- setNames(harbin, c("times", "count"))
ss <- startfun(harbin2, type="death")
ff <- fitsir(harbin2, start=ss, type="death", method="BFGS")
plot(ff)

ff2 <- fitsir(harbin2, start=c(ss, ll.k=5), type="death", dist="nbinom", method="BFGS")
ff3 <- fitsir(harbin2, start=ss, type="death", dist="quasipoisson", method="BFGS")
plot(ff2, level=0.95, col.traj="red", main="Negative binomial error vs. Quasipoisson error CIs")
plot(ff3, add=TRUE, level=0.95, col.traj="blue", col.conf="blue")
legend(2, 270, legend = c("NB2", "Quasipoisson"), col=c("red", "blue"), lty=1)

bbolker/fitsir documentation built on June 4, 2019, 8:28 a.m.