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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