Table 2 Descriptive block statistics for all 1000 European, African American, and East Asian haplotypes using all SNPs and all SNPs with a MAF of at least 10%
From: Analysis of concordance of different haplotype block partitioning algorithms
European haplotypes | |||||
|---|---|---|---|---|---|
Method | MAF | Number of Blocks | Mean bp/block | Mean SNPs/block | % coverage |
HapBlock | 0.1% | 180 | 951.63 | 7.49 | 85.6% |
HapBlock | 10% | 48 | 3363.60 | 7.64 | 80.7% |
Gabriel | 0.1% | 39 | 4414.28 | 31.41 | 86.1% |
Gabriel | 10% | 33 | 4837.52 | 10.84 | 79.8% |
MDBlocks | 0.1% | - | - | - | - |
MDBlocks | 10% | 18 | 9348.78 | 20.39 | 84.4% |
African American haplotypes | |||||
Method | MAF | Number of Blocks | Mean bp/block | Mean SNPs/block | % coverage |
HapBlock | 0.1% | 232 | 733.52 | 7.13 | 85% |
HapBlock | 10% | 61 | 2499.93 | 6.26 | 76.2% |
Gabriel | 0.1% | 40 | 4433.62 | 37.85 | 88.6% |
Gabriel | 10% | 36 | 4416.75 | 10.25 | 80% |
MDBlocks | 0.1% | - | - | - | - |
MDBlocks | 10% | 18 | 10004.44 | 21.22 | 90% |
East Asian haplotypes | |||||
Method | MAF | Number of Blocks | Mean bp/block | Mean SNPs/block | % coverage |
HapBlock | 0.1% | 208 | 831.83 | 7.93 | 86.5% |
HapBlock | 10% | 57 | 2596.73 | 5.84 | 74% |
Gabriel | 0.1% | 41 | 3966.02 | 24.12 | 81.3% |
Gabriel | 10% | 38 | 3437.13 | 8.34 | 65.3% |
MDBlocks | 0.1% | - | - | - | - |
MDBlocks | 10% | 18 | 10006.11 | 18.50 | 90% |