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Table 2 Missing branch rates for 1000-taxon model conditions

From: MRL and SuperFine+MRL: new supertree methods

 

Scaffold Density

Method

20

50

75

100

Average

MRP(PAUP*)

20.7 (1.1)

17.7 (0.8)

16.2 (0.8)

11.7 (0.9)

16.2 (0.7)

MRP(TNT)

27.9 (1.6)

19.1 (1.3)

14.9 (1.1)

11.7 (0.8)

17.6 (1.1)

MRL(RAxML)

15.7 (0.7)

14.1 (0.6)

13.8 (1.0)

11.9 (0.8)

13.7 (0.5)

SCM

22.6 (0.7)

22.7 (0.7)

21.0 (0.7)

19.0 (0.6)

21.2 (0.4)

SuperFine+MRP(PAUP*)

15.7 (0.7)

14.7 (0.7)

13.7 (0.9)

11.6 (0.8)

13.7 (0.5)

SuperFine+MRP(TNT)

15.7 (0.8)

14.5 (0.7)

13.6 (0.9)

11.8 (0.8)

13.7 (0.5)

SuperFine+MRL(RAxML)

16.1 (0.8)

15.0 (0.5)

13.9 (0.9)

11.9 (0.8)

14.0 (0.5)

  1. We show the average missing branch rates (reported as %) on the 1000-taxon datasets. Missing branch rate is calculated as total number of FN edges in the model tree divided by the total number of internal edges in the model tree. Each simulated dataset has 25 clade-based source trees and 1 scaffold tree. The scaffold density is the percentage of the full taxon set that is present in the scaffold tree. The standard error is shown in parenthesis. n = 7 for the 20% scaffold density, n = 9 for the 50% scaffold density, and n = 10 for the remaining scaffold densities. n = 36 for the average. The lowest missing branch rate for each scaffold density is shown in bold.
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Algorithms for Molecular Biology

ISSN: 1748-7188