Supplementary Figure S8

Validation of the three-step phylogenetic inference process. Cladograms of the simulated tree (left) matched with the tree that was re-estimated from the synthetic dataset using SUPERSMART (right). Species present in both trees are connected by lines which are colour-coded by the subclades that the backbone tree was decomposed into. Branches in the re-estimated tree that form the backbone are coloured in red. Black lines represent genera that have less than three species. The plot was generated using the R package ‘ape’.