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Table 3 The median and range of the 10 × 10-fold correct classification rates (CCR) for all simulation experiments.

From: A markov classification model for metabolic pathways

  

Percent Within Group Noise

Graph

Model

M = 2

M = 3

  

0.1

0.2

0.3

0.4

0.5

0.1

0.2

0.3

0.4

0.5

Small

HME3M

96.79

90.94

85.79

79.80

74.97

96.14

92.64

86.46

79.86

76.13

 

   CCR Range

4.15

6.99

4.49

7.42

6.73

3.36

7.69

3.98

16.83

7.36

 

PLR

50.67*

50.98*

50.68*

50.35*

50.96*

50.83*

50.70*

50.58*

50.62*

50.70*

 

   CCR Range

1.53

1.54

2.13

1.66

1.55

1.11

1.71

1.35

1.42

0.68

 

SVM (linear)

95.14*

90.48*

85.28

78.94

72.53*

94.77*

89.01*

85.16*

78.66

75.21

 

   CCR Range

0.72

2.31

3.16

2.61

7.02

1.61

4.39

2.72

11.55

14.54

 

SVM (polynomial)

95.25*

90.05*

84.19*

79.42

75.03

94.91*

89.71*

84.82*

78.66

75.73

 

   CCR Range

1.52

1.18

3.74

3.15

6.92

2.33

3.67

4.38

3.09

8.41

 

SVM (radial)

95.28*

89.73*

84.19*

79.39

75.07

94.37

89.48*

84.82*

78.94

75.35

 

   CCR Range

1.53

2.81

4.20

2.61

8.02

2.32

4.53

3.28

4.14

7.29

Medium

HME3M

98.94

94.29

88.68

80.78

77.05

98.80

96.22

90.11

84.02

77.89

 

   CCR Range

2.92

6.18

5.73

12.51

5.56

2.40

5.59

10.57

8.98

8.76

 

PLR

50.48*

50.62*

50.68*

50.48*

50.55*

50.55*

50.35*

50.62*

50.55*

50.48*

 

   CCR Range

2.04

0.99

1.30

2.13

1.23

0.97

0.69

1.63

1.31

1.13

 

SVM (linear)

94.68*

89.80*

83.91

79.64*

76.02

94.28*

89.52*

84.80*

80.19*

73.41*

 

   CCR Range

2.74

22.91

3.56

4.17

4.12

1.72

2.60

5.17

2.89

5.40

 

SVM (polynomial)

94.92*

90.30*

84.53*

79.32*

75.07*

94.22*

90.35*

84.53*

79.72*

75.21*

 

   CCR Range

2.73

21.22

4.00

5.80

2.83

1.65

3.69

6.85

2.85

4.91

 

SVM (radial)

94.60*

90.30*

84.52*

79.28*

74.70*

94.19*

89.68*

84.31*

80.72*

74.80*

 

   CCR Range

2.45

4.35

2.82

2.99

4.56

1.90

3.49

4.67

2.93

3.59

Large

HME3M

99.54

97.36

93.29

83.73

77.88

99.39

97.52

94.08

84.78

83.11

 

   CCR Range

2.96

5.00

9.44

10.17

9.97

1.77

6.12

10.23

10.05

11.56

 

PLR

50.69*

50.27*

50.49*

50.56*

50.62*

50.41*

50.70*

50.34*

50.83*

50.82*

 

   CCR Range

1.40

1.27

1.69

1.69

0.82

1.11

1.39

1.51

0.98

1.09

 

SVM (linear)

94.91*

89.31*

85.58*

79.55*

73.79*

94.23*

89.34*

85.30*

79.67*

74.34*

 

   CCR Range

0.76

3.29

4.66

3.72

4.51

2.24

2.18

2.68

2.77

7.30

 

SVM (polynomial)

94.78*

89.45*

85.80*

78.67*

74.05*

94.28*

89.86*

84.69*

79.44*

74.33*

 

   CCR Range

2.22

2.87

4.94

3.46

4.60

2.24

15.39

3.24

4.66

4.86

 

SVM (radial)

94.98*

89.74*

85.09*

79.36*

74.21*

94.62*

89.83*

84.47*

79.56*

74.62*

 

   CCR Range

1.43

4.00

5.29

2.62

2.66

1.69

2.39

2.28

4.99

6.10

  1. The best model performances are emboldened and a * flags models performances that are significantly different from HME3M (α = 0.05).