plot.list.simode: Plot the fit/estimates of a `list.simode` object

Description

Plot the fit or parameter estimates obtained from a call to simode with obs_sets>1.

Usage

# S3 method for list.simode
plot(
  x,
  type = c("fit", "est"),
  show = c("nls", "im", "both"),
  which = NULL,
  pars_true = NULL,
  time = NULL,
  plot_mean_sd = F,
  plot_im_smooth = F,
  legend = F,
  mfrow = par("mfrow"),
  cols = list(nls_fit = "blue", im_fit = "green", true = "black", obs = "red", im_smooth
    = "magenta"),
  ...
)

Arguments

x: list.simode object.
type: Type of plot - 'fit' to plot the fitted equations and 'est' to plot the parameter estimates.
show: Whether to plot the fit/estimates obtained using nonlinear least squares ('nls'), integral-matching ('im') or both ('both').
which: Which variables to plot in case type='fit', or which parameters to plot in case type='est'. If empty, the plot will include all of the variables/parameters in x.
pars_true: The true parameter values (if are known). Should be named using the parameter names. If given, the true values for the variables/parameters will be added to the plot.
time: The time points to use for the fitted curves (relevant only for type='fit'). If not given then the time points of the observations in x will be used.
plot_mean_sd: Plot the mean and standard deviation for the fit/estimates of the simode objects in x. To be used when x is the result of fitting monte-carlo simulations.
plot_im_smooth: Whether or not to plot the smoothed curves created and used by the integral-matching procedure (relevant only for type='fit').
legend: Whether or not to add a figure legend.
mfrow: A vector of the form c(nr,nc) setting the layout of subplots in one plot (see also par).
cols: List of colors for each element of the plot.
...: Additional argument(s) for methods.