Reliable estimates of shape on simulated phylogenies

Data and scripts used to test our procedure for parameter estimation over the three sets of simulated phylogenies (SI_Fig 6, 7, and 8). We would like to stress that this is not a complete catalogue of all R-scripts used in our study, especially regarding plotting and investigation of model behavior, once much was simulated with a cluster computer involving multiple outputs, code files and csv parameter tables that changed over time. If you plan to run similar experiments, we strongly encourage the reading of our TreeSimGM R-package help material.