Package index • o2ools

All functions

filter_alpha_by_kappa(): Filter ancestries by generation threshold

get_accuracy(): Calculate accuracy of a outbreak reconstruction

get_entropy(): Compute the entropy of transmission trees

get_trees(): Extract posterior transmission trees

identify(): Replace integers from the outbreaker2 output with unique identifiers.

sample.outbreaker_chains(): Sample rows from an outbreaker_chains object

ttable(): Compute the transmission table