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Table 2 Number of Clusters for Hierarchical Cluster Methods and Tree Cutting Strategies at 1%FPR.

From: Towards an automatic classification of protein structural domains based on structural similarity

Group

Tree Cutting Strategy

Hierarchical Cluster Method

VAST Nres

VAST Pcli

SHEBA Nres

SHEBA Zscore

DALI Nres

DALI Zscore

2

Level

Average

460

573

576

402

444

389

2

Level

Complete

307

250

332

195

221

396

2

Level

Single

810

1023

921

686

787

1041

2

Level

Ward

110

120

138

106

113

121

3

Largest Size

Average

183

210

222

190

169

256

3

Largest Size

Complete

81

84

88

94

69

82

3

Largest Size

Single

515

658

528

420

439

792

3

Largest Size

Ward

71

79

81

71

67

72

3

Tree Completeness

Ward

95

89

87

88

101

96

3

Highest tree

Ward

88

80

84

81

92

91

1

Tree skewness

Ward

603

701

603

592

606

641

1

Longest node

Ward

409

704

627

837

646

991

2

Maximum Entropy

Ward

143

146

109

101

81

109

1

BestTPR

Ward

1121

1112

1054

1106

1185

1029

4

Best ratio TPR &FPR

Ward

59

65

70

61

57

63

4

MI

Ward

105

76

72

68

55

77