Summarize COI

Usage

summarize_coi(
  mcmc_results,
  lower_quantile = 0.025,
  upper_quantile = 0.975,
  naive_offset = 2,
  merge_chains = TRUE
)

Arguments

mcmc_results: Result of calling run_mcmc
lower_quantile: The lower quantile of the posterior distribution to return
upper_quantile: The upper quantile of the posterior distribution to return
naive_offset: Offset used in calculate_naive_coi_offset
merge_chains: boolean indicating that all chain results should be merged

Details

Summarize complexity of infection results from MCMC. Returns a dataframe that contains summaries of the posterior distribution of COI for each biological sample, as well as naive estimates of COI.