Fig. 3
From: Rooting phylogenetic trees under the coalescent model using site pattern probabilities
Accuracy of the rooting method when the molecular clock assumption holds. In each panel, the x-axis denotes the data size (kb), and the y-axis shows the proportion of the data sets for which the correct rooting position is selected in a total of 500 simulations. From left to right, each column represents one set of simulation studies as described in the Methods section. a, c: The first set of simulation studies (coalescent independent sites); b, d: The second set of simulation studies (multi-locus DNA). From top to bottom, each row represents one possible split of a four-leaf unrooted species tree denoted by ① and ⑤ as in Fig. 1. a, b: Root position at ①, c, d: Root position at ⑤. Solid lines in each panel represents the species trees in the “Long branch lengths” group, while the species trees in the “Short branch lengths” group are denoted by dashed lines. In the simulation studies, DNA sequences data is simulated under the JC69 (black), HKY (red), and GTR+I+ Γ (green) models, respectively