Trace and density plots for coevfit objects

Trace and density plots for coevfit objects

# S3 method for class 'coevfit'
plot(
  x,
  parameters = NULL,
  combo = c("dens", "trace"),
  npars = 5,
  plot = TRUE,
  ...
)

Arguments

x: An object of class coevfit.
parameters: If NULL (default), the function returns a list of plots for the main parameters from the model (the selection matrix "A", the drift matrix "Q", and the continuous time intercepts "b"). Otherwise, a character vector declaring the parameters to plot (strictly case-sensitive).
combo: A character vector with at least two elements. Each element of combo corresponds to a column in the resulting plot and should be the name of one of the available MCMC functions (omitting the mcmc_ prefix).
npars: Number of parameters displayed per page (default = 5).
plot: Logical. If TRUE (default), plots are plotted in the active graphic device. If FALSE, plots are not plotted.
...: Not used.

Value

A list of ggplot objects

Examples

if (FALSE) { # \dontrun{
# fit dynamic coevolutionary model
fit <- coev_fit(
  data = authority$data,
  variables = list(
    political_authority = "ordered_logistic",
    religious_authority = "ordered_logistic"
  ),
  id = "language",
  tree = authority$phylogeny,
  # additional arguments for cmdstanr::sample()
  chains = 4,
  parallel_chains = 4,
  seed = 1
  )

# print trace and density plots
plot(fit)
} # }