Select endemicity status from ancestral states probabilities — select_endemicity

Selects a state for each node (both internal nodes, i.e. ancestral states, and tips, if included) from a table of probabilities.

Usage

select_endemicity_status(asr_df, method = "max")

asr_df: a data frame containing at least these three columns: not_present_prob | endemic_prob | nonendemic_prob (in any order). Each column should contain the estimated probability of the state for each node (rows) and these columns should sum to 1.
method: "max" or "random". "max" will select the state with highest probability (selecting last state in event of a tie), while "random" will sample the states randomly with the probabilities as weight for each state.

a character vector, with the selected endemicity status for each node.