Table 13.
QAN50 results of the tools on datasets of NA12878
| Chrom. | HapCHAT | HapCol | WhatsHap | WhatsHap | HapCUT2 | ReFHap | ProbHap | FastHare |
|---|---|---|---|---|---|---|---|---|
| cov. 15x | cov. 20x | |||||||
| 1 | 91098 | - | 91668 | 91677 | 89249 | - | - | 84863 |
| 2 | 210603 | - | 210098 | 211732 | 211732 | - | - | 177388 |
| 3 | 229835 | - | 227732 | 229835 | 229655 | - | - | 170494 |
| 4 | 90639 | - | 91034 | 90639 | 89868 | - | - | 84861 |
| 5 | 99011 | - | 99012 | 99567 | 98900 | - | - | 91745 |
| 6 | 94780 | - | 94200 | 94780 | 93894 | - | - | 85483 |
| 7 | 156573 | - | 155773 | 155773 | 155209 | - | - | 135095 |
| 8 | 90928 | - | 91069 | 90836 | 90661 | - | - | 84076 |
| 9 | 85172 | - | 85655 | 85469 | 85655 | 82917 | - | 80957 |
| 10 | 123171 | - | 123171 | 123224 | 122317 | 114172 | - | 112861 |
| 11 | 84153 | - | 84108 | 84108 | 84237 | 81526 | - | 79057 |
| 12 | 224308 | - | 224308 | 228356 | 224308 | 190161 | - | 174540 |
| 13 | 229318 | - | 228310 | 228310 | 227286 | 178173 | - | 175124 |
| 14 | 243192 | - | 243192 | 227040 | 220294 | 186476 | - | 181826 |
| 15 | 180874 | 153527 | 173950 | 176529 | 176529 | 147339 | - | 138185 |
| 16 | 193611 | 160049 | 193611 | 190884 | 189342 | 158848 | - | 152960 |
| 17 | 162690 | 151262 | 163789 | 163789 | 162328 | 140216 | - | 133887 |
| 18 | 93705 | - | 94210 | 93705 | 94210 | 87076 | - | 83383 |
| 19 | 62662 | - | 62662 | 62568 | 62233 | 59716 | - | 58694 |
| 20 | 165921 | 163062 | 165921 | 176807 | 165921 | 140498 | - | 140034 |
| 21 | 222171 | - | 222769 | 221786 | 222171 | 149165 | - | 146675 |
| 22 | 82618 | 73223 | 85112 | 82618 | 85112 | 72117 | - | 70718 |
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