Table 1

Average accuracy (shown as a percentage) of DivE (dE) and DLESS (dl) to detect conservation and accelerated evolution computed on all primate subtrees for simulated data of different lengths.

50 bp

100 bp

200 bp

500 bp

1000 bp

dE

dl

dE

dl

dE

dl

dE

dl

dE

dl


gain

0.01

4.4

1.6

15.0

5.3

32.3

15.6

59.6

40.0

80.7

66.0


0.02

5.2

1.7

15.1

6.3

32.7

15.9

58.7

40.0

81.5

63.7


0.05

3.8

1.6

13.0

5.6

30.5

15.6

56.0

39.9

79.6

62.2


0.1

4.7

0.9

12.2

3.8

27.5

14.6

54.0

37.8

77.2

58.6


0.2

2.0

1.6

8.7

2.7

22.7

10.5

48.6

33.6

70.7

53.8


0.3

2.1

0.2

6.6

2.0

18.3

8.9

40.7

28.0

62.1

48.4


0.4

1.3

0.3

5.2

1.8

13.6

5.8

33.8

21.5

54.2

36.6


0.5

0

0.2

1.9

0.1

13.0

4.1

25.4

13.8

45.4

26.0


loss

0.01

85.6

73.6

93.9

86.5

97.4

93.5

99.1

97.2

99.5

98.8


0.02

85.7

72.7

93.7

86.8

97.3

93.5

99.0

97.3

99.5

98.6


0.05

84.3

69.3

93.4

86.9

97.2

93.6

99.0

97.3

99.5

98.7


0.1

82.2

61.5

91.8

86.3

96.7

93.1

98.9

97.4

99.5

98.9


0.2

70.6

43.9

87.5

84.1

94.2

91.9

98.1

97.3

99.2

98.7


0.3

53.9

29.8

81.6

72.3

90.5

90.4

96.2

96.7

98.3

98.3


0.4

41.2

22.8

70.7

52.6

85.7

80.7

93.7

94.0

96.7

96.6


0.5

31.3

12.5

55.1

37.0

77.3

58.9

89.8

80.8

94.4

87.6


acc

0.01-1

71.0

-

80.4

-

88.0

-

93.6

-

96.4

-


0.02-1

69.5

-

79.8

-

87.1

-

93.5

-

96.1

-


0.05-1

54.4

-

73.7

-

84.8

-

92.7

-

95.9

-


0.1-1

35.8

-

58.7

-

78.7

-

90.7

-

95.2

-


0.2-1

16.4

-

33.2

-

56.1

-

80.9

-

90.2

-


0.3-1

6.1

-

20.4

-

36.8

-

61.5

-

80.3

-


0.4-1

3.0

-

8.6

-

24.2

-

47.1

-

66.6

-


0.5-1

1.8

-

3.7

-

10.7

-

31.9

-

47.0

-


Accuracy was computed as the average of precision and recall. The first column in table shows the type of selection (gain, loss, or acceleration), and the value of the scaling parameter ρ. Smaller values of ρ correspond to stronger selection pressure, which is easier to detect. Results in bold show the larger accuracy value for each comparison between DivE and DLESS.

Pertea et al. BMC Bioinformatics 2011 12:274   doi:10.1186/1471-2105-12-274

Open Data