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Table 1 Mean of Robinson-Foulds distance with QuartetSuite and global ML and NJ (variance shown in parentheses), 600 bp

From: EM for phylogenetic topology reconstruction on nonhomogeneous data

Mean Robinson-Foulds distane with QuartetSuite, 600 bp

Top.

Method

b

  

0.005

0.015

0.05

0.1

cc

NJ

7.63 (10.82)

6.55 (18.32)

10.70 (13.04)

12.82 (9.57)

 

ML

3.70 (4.91)

2.16 (1.46)

3.04 (1.42)

7.37 (19.97)

 

EMtree

3.77 (4.14)

2.22 (2.33)

3.20 (1.10)

3.62 (3.27)

 

global NJ

1.68 (3.42)

1.60 (0.64)

6.96 (10.76)

13.16 (1.45)

 

global ML

1.04 (3.08)

0.0 (0.0)

0.0 (0.0)

3.10 (0.99)

cd

NJ

8.01 (14.01)

8.96 (11.61)

11.16 (12.54)

12.31 (10.48)

 

ML

5.16 (3.56)

3.34 (2.03)

3.39 (1.59)

8.12 (19.28)

 

EMtree

5.31 (3.96)

3.71 (2.82)

3.67 (1.61)

4.38 (4.12)

 

global NJ

5.80 (3.72)

5.56 (0.69)

8.44 (0.69)

13.12 (1.31)

 

global ML

5.04 (3.08)

4.0 (0.0)

4.0 (0.0)

6.60 (0.84)

dd

NJ

10.55 (9.53)

9.45 (9.39)

10.90 (13.95)

11.97 (10.91)

 

ML

7.71 (3.67)

6.42 (1.12)

6.08 (1.58)

9.58 (17.09)

 

EMtree

7.58 (5.07)

6.87 (1.73)

5.94 (1.44)

6.60 (4.60)

 

global NJ

9.24 (0.94)

9.60 (0.64)

10.4 (2.88)

13.08 (1.31)

 

global ML

7.48 (0.77)

8.0 (0.0)

8.0 (0.0)

10.60 (0.84)