This repository accompanies the manuscript "ClockstaRX: testing molecular clock hypotheses in genomic data".

phylogram_sims.Rscript - Creates simulations of species trees and phylograms and runs ClockstaRX on each data set.

examine.sim.runs.Rscript - Extracts all data from simulatons and summarises it in a table.

clustering.criteria.comparison.Rscript - Extracts data about clustering and produces figures that summarise performance across clusteing criteria.