Table 2.
Incorrect haplotype block percentage (%) obtained by the tools when applied on chromosomes 1, 6, and 17
| Tool | Chr1 | Chr6 | Chr17 |
|---|---|---|---|
| Consensus haplotype | 0.45 | 0.41 | 0.46 |
| BEAGLE | 0.46 | 0.43 | 0.49 |
| SHAPEIT2 | 0.47 | 0.42 | 0.51 |
| EAGLE2 | 0.48 | 0.44 | 0.48 |
| HAPI-UR | 1.26 | 1.27 | 1.25 |
| IMPUTE | 1.17 | 1.18 | 1.47 |
| fastPHASE | 0.54 | 0.5 | 0.58 |
| MaCH | - | - | 0.54 |
Numbers in bold are the minimum error obtained by any approach while underlined numbers are the minimum error for a single tool. MaCH was excluded from the tests applied on chromosome 1, and 6 due to extensive performance time