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Table 2 Single Node performance comparison of IMOS and the original Meta-aligner

From: IMOS: improved Meta-aligner and Minimap2 On Spark

Dataset

Tool

Map rate (%)

Accuracy (%) T=0

Accuracy (%) T=10

Accuracy (%) T=100

Time (s)

Wgsim-S0

IM

99.66

94.5

94.9

94.9

40

 

Meta-aligner

95.31

93.40

93.73

93.74

58

 

BWA-MEM

97.81

99.81

99.99

100

20

 

Minimap2

97.44

97.94

99.99

99.99

12

Wgsim-S1

IM

99.95

97.36

97.9

97.9

97

 

Meta-aligner

97.79

94.76

96.27

96.29

174

 

BWA-MEM

98.89

99.78

99.99

99.99

79

 

Minimap2

98.67

97.86

99.99

99.99

25

Wgsim-S2 (Indel rich)

IM

99.43

87.17

95.52

96.62

360

 

Meta-aligner

70.74

21.58

79.6

90.65

501

 

BWA-MEM

97.65

85.42

99.94

99.97

130

 

Minimap2

97.99

75.76

99.16

99.98

23

Wgsim-S3 (Mismatch rich)

IM

99.46

95.13

96.62

96.62

352

 

Meta-aligner

99.05

67.09

96.21

96.23

202

 

BWA-MEM

98.38

82.18

90.86

99.91

134

 

Minimap2

97.79

76.60

98.94

99.99

24

Wgsim-L0 (Indel rich)

IM

99.96

78.04

97.27

97.37

780

 

Meta-aligner

79.96

7.41

39.2

92.37

1928

 

BWA-MEM

98.84

74.78

99.69

99.98

180

 

Minimap2

99.04

59.02

94.58

99.98

47

Wgsim-L1

IM

99.81

99.02

99.05

99.05

438

 

Meta-aligner

99.49

90.71

97.71

97.73

2306

 

BWA-MEM

99.20

99.10

100

100

118

 

Minimap2

99.05

98.06

100

100

33

Wgsim-L2 (Indel rich)

IM

98.63

76.61

99.14

99.14

1954

 

Meta-aligner

95.97

5.02

31.56

94.23

6103

 

BWA-MEM

99.22

75.00

99.77

99.98

318

 

Minimap2

99.22

58.69

94.74

99.98

72

SimLoRD

IM

92.79

89.75

93.69

93.69

991

 

Meta-aligner

92.79

0.08

22.15

42.09

1851

 

BWA-MEM

92.43

85.46

95.98

97.65

458

 

Minimap2

92.43

79.88

98.07

99.89

75

PBSim

IM

99.75

88.60

95.81

95.96

1098

 

Meta-aligner

90.55

1.05

5.15

40.49

3918

 

BWA-MEM

98.65

65.22

96.01

97.65

567

 

Minimap2

98.93

54.50

95.56

99.98

78

SRX533609

IM

92.35

-

-

-

9031

 

Meta-aligner

70.05

-

-

-

24,393

 

BWA-MEM

92.75

-

-

-

3653

 

Minimap2

89.58

-

-

-

348

ERX1366175

IM

97.33

-

-

-

2780

 

Meta-aligner

88.15

-

-

-

14,303

 

BWA-MEM

95.24

-

-

-

1512

 

Minimap2

94.14

-

-

-

146