Extract a trajectory table from an EpiFusion posterior R object

This function extracts a table with the mean and HPD intervals of infection, Rt and cumulative infection trajectories from an EpiFusion posterior R object. You can provide your analysis index date if you want to have your 'Time' column in terms of dates.

trajectory_table(epifusion_posterior, index_date = NA)

Arguments

epifusion_posterior

an extracted EpiFusion posterior object made with the extract_posterior_epifusion() function

index_date

(optional) date you'd like the time series to count from, as a date object or as a string with format YYYY-MM-DD

Value

a table with a column for Time and a column for Mean, Upper and Lower 95%, 88% and 66% HPDs for inferred Infections and Rt