Skip to main content

Advertisement

Springer Nature is making SARS-CoV-2 and COVID-19 research free. View research | View latest news | Sign up for updates

Table 4 Rate estimates for the pure-birth process with rate shifts.

From: A Bayesian framework to estimate diversification rates and their variation through time and space

Simulation settings    Estimates  
no. of tips λ s λMEAN(rel. error) s MODE
50 0.1, 0.2 5 0.11 (0.12), 0.24 (0.22) 4.86
100 0.1, 0.2 5 0.10, 0.22 (0.12) 4.81
50 0.05, 0.25 3.5 0.05, 0.26 3.59
100 0.05, 0.25 5 0.05 (0.07), 0.26 4.97
50 0.02, 0.16 5 0.02 (0.07), 0.17 (0.07) 4.95
100 0.02, 0.16 5 0.02, 0.16 5.05
50 0.2, 0.1 5 0.19, 0.12 (0.17) 5.09
100 0.2, 0.1 7 0.21, 0.11 6.97
50 0.5, 0.1 3 0.50, 0.11 (0.12) 3.06
100 0.5, 0.1 5 0.51, 0.10 5.04
50 0.16, 0.02 5 0.16, 0.03 (0.31) 5.05
100 0.16, 0.02 5 0.16, 0.02 (0.19) 5.01
50 0.1, 0.2, 0.1 3, 7 0.12 (0.22), 0.19 (-0.06), 0.12 (0.22) 3.01, 6.96
100 0.1, 0.2, 0.1 5, 10 0.10, 0.19 (-0.06), 0.11 (0.08) 4.88, 10.04
50 0.1, 0.5, 0.1 2, 4 0.11 (0.07), 0.32 (-0.36), 0.12 (0.21) 2.05, 3.95
100 0.1, 0.5, 0.1 2, 6 0.12 (0.18), 0.50, 0.11 (0.10) 1.94, 6.05
50 0.02, 0.16, 0.02 15, 20 0.03, 0.15, 0.03 (0.41) 15.49, 19.77
100 0.02, 0.16, 0.02 15, 20 0.02, 0.16, 0.02 (0.10) 15.48, 20.58
  1. Speciation rates (λ) and temporal position of rate shifts (s) are inferred under the variable rate pure-birth model, averaged over 100 phylogenies for each simulation. The marginal rates are estimated as the mean of their posterior distributions, positions of rate shifts are estimated as the modal values of their posterior distributions. Relative errors are given in parenthesis if higher than 0.05.