Table 2 Phasing results from AlphaPhase for the genotype scenarios per population
Scenario | All | Heterozygous | Time (min) | Memory (MB) | ||||
|---|---|---|---|---|---|---|---|---|
Correct | Unphased | Incorrect | Correct | Unphased | Incorrect | |||
Illumina 50 Kv2 | 98.33 | 1.59 | 0.08 | 93.97 | 5.66 | 0.37 | 47 | 2509 |
Illumina HD | 98.46 | 1.45 | 0.10 | 94.84 | 4.74 | 0.43 | 119 | 4056 |
Two-Illumina | 95.02 | 4.70 | 0.28 | 93.21 | 5.67 | 1.13 | 41 | 2448 |
Two-mixed | 95.55 | 4.05 | 0.40 | 94.30 | 4.44 | 1.26 | 54 | 2552 |
Three-MD | 96.18 | 3.15 | 0.67 | 95.26 | 3.28 | 1.47 | 118 | 3105 |
Mixed MD/HD | 89.81 | 8.20 | 1.99 | 91.79 | 4.48 | 3.73 | 168 | 3982 |