Plot convergence diagnostics

Usage

plot_convergence(
  results,
  type = "logpost",
  additional_burnin = 0,
  chain = NULL
)

results: SNP-Slice results object
type: Type of plot ("logpost", "kstar", "n_strains")
additional_burnin: Number of additional stored samples to discard from the start of the retained chain. The retained chain is already post-burn-in, so this defaults to 0.
chain: Which chain of a multi-chain run to use. NULL (default) uses the top-level estimates, i.e. the chain with the highest MAP log posterior (results$best_chain). Give an index to analyse a specific chain instead; see compare_chains.

Plot object (if ggplot2 is available)