Table 2

Empirical Data Study: Impact of the Number of Permutations

# Permutations

99/999/9,999

99/999

99/9,999

999/9,999


Tree

W

U

W

U

W

U

W

U


p = 0.01

16

48

14

35

13

36

5

25

p = 0.02

7

27

5

27

6

27

3

0

p = 0.03

4

22

3

17

4

19

1

8

p = 0.04

2

18

1

17

2

18

1

1

p = 0.05

1

8

0

8

1

7

1

1


The table outlines the impact of the number of permutations on the distribution of significant and insignificant links for distinct p-values. Column (99/999/9,999) indicates the number of links that have a different significance than at least one of the other runs.

Stamatakis et al. BMC Bioinformatics 2007 8:405   doi:10.1186/1471-2105-8-405

Open Data