Table 5 Performance comparison of AltHap, H-PoP, BP, and SCGD on a simulated biallelic tetraploid data set with haplotype block length m=1000. HapTree could not finish the simulations in 48 hours
From: Sparse Tensor Decomposition for Haplotype Assembly of Diploids and Polyploids
| Â | Â | AltHap | H-PoP | BP | SCGD | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Err | Cov | CPR | MEC | t(s) | CPR | MEC | t(s) | CPR | MEC | t(s) | CPR | MEC | t(s) |
0.002 | 10 | 91.1 | 1113 | 43 | 70.7 | 3366 | 43 | 69.8 | 4568 | 290 | 67.1 | 14839 | 208 |
0.002 | 20 | 95.0 | 2113 | 87 | 73.4 | 7359 | 113 | 71.2 | 9434 | 540 | 51.7 | 41241 | 419 |
0.002 | 30 | 99.9 | 674 | 163 | 72.6 | 11693 | 598 | 71.5 | 12745 | 1496 | 51.8 | 61885 | 653 |
0.01 | 10 | 98.2 | 938 | 44 | 69.3 | 3511 | 46 | 66.4 | 6475 | 296 | 67.1 | 14819 | 213 |
0.01 | 20 | 99.3 | 1668 | 87 | 70.3 | 7882 | 114 | 66.9 | 10213 | 552 | 51.5 | 41712 | 414 |
0.01 | 30 | 95.3 | 6518 | 164 | 71.0 | 12392 | 597 | 68.4 | 13245 | 1485 | 51.5 | 61981 | 652 |
0.05 | 10 | 93.7 | 3905 | 44 | 67.7 | 4110 | 46 | 64.5 | 6869 | 306 | 65.0 | 15861 | 213 |
0.05 | 20 | 95.8 | 9645 | 89 | 69.1 | 9109 | 118 | 68.5 | 11477 | 623 | 51.9 | 41042 | 408 |
0.05 | 30 | 81.5 | 18690 | 165 | 70.0 | 14212 | 601 | 67.5 | 17681 | 1504 | 51.7 | 62261 | 643 |