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Table 12 Hamming Distance percentage on datasets of NA12878

From: HapCHAT: adaptive haplotype assembly for efficiently leveraging high coverage in long reads

Chrom.

HapCHAT

HapCol

WhatsHap

WhatsHap

HapCUT2

ReFHap

ProbHap

FastHare

   

cov. 15x

cov. 20x

    

1

2.12

-

1.92

2.10

2.11

-

-

6.16

2

0.51

-

0.49

0.29

0.77

-

-

4.91

3

0.32

-

0.42

0.42

0.48

-

-

4.74

4

2.47

-

2.15

2.18

2.00

-

-

6.44

5

2.33

-

2.53

2.22

1.98

-

-

6.56

6

3.39

-

3.02

3.20

2.82

-

-

7.15

7

1.16

-

1.10

1.10

1.36

-

-

5.05

8

2.44

-

2.46

2.54

2.02

-

-

6.14

9

2.45

-

2.31

2.49

2.11

5.68

-

6.23

10

1.19

-

1.16

1.18

0.93

3.89

-

5.29

11

2.08

-

2.06

2.06

1.99

4.25

-

5.08

12

0.43

-

0.48

0.38

0.51

2.92

-

5.54

13

0.41

-

0.63

0.57

0.35

4.01

-

4.84

14

0.21

-

0.48

0.58

0.17

3.01

-

3.24

15

0.23

3.39

0.24

0.34

0.34

4.18

-

5.49

16

0.24

2.09

0.45

0.88

0.28

1.65

-

2.87

17

0.50

2.84

0.38

0.79

0.20

2.89

-

4.61

18

1.80

-

1.67

1.65

1.68

4.77

-

8.10

19

3.19

-

3.14

3.40

2.99

4.37

-

7.32

20

1.37

3.47

0.16

0.10

0.16

2.99

-

4.07

21

0.10

-

0.10

0.10

1.95

5.37

-

4.22

22

1.82

4.92

1.84

1.83

1.82

4.83

-

6.52

  1. Each row corresponds to a chromosome. The dataset consists of all reads aligned to the chromosome. We report the results obtained by running the tools with maximum coverage 30 × for HapCHAT, 25 × for HapCol, 15 × and 20 × for WhatsHap. No maximum coverage was set for HapCUT2, ReFHap, ProbHap, and FastHare. The best result (lowest value) for each dataset is boldfaced