Table 1 Definition and size of the classes
From: iXora: exact haplotype inferencing and trait association
Accuracy % | Trait | Time | ||||
|---|---|---|---|---|---|---|
PA (ua) | Imp. (ua) | PHA % | Assoc. | Sec | Remarks | |
Unrelated individuals (no parent information) | ||||||
fastPHASE [6] | 60.07(0.00) | 59.77(0.00) | NA | No | 78 | |
58.01(0.00) | 56.55(0.00) | 158 | ||||
FMPH [12] | - | - | NA | No | - | Up to 30-100 markers |
MACH [9] | 52.89 (0.00) | 52:16(0:00) | NA | Yes | 567 | |
52.49 (0.00) | 50.91 (0.00) | 1144 | ||||
Unrelated trios | ||||||
BEAGLE [5] | 99.90 (0.00) | 98.61 (0.00) | NA | Yes | 5 | |
99.90 (0.00) | 98.28 (0.00) | 10 | ||||
HAPI-UR [8] | 99.69 (0.00) | 94.75 (0.00) | NA | No | 3 | |
99.67 (0.00) | 94.88 (0.00) | 7 | ||||
Related trios | ||||||
HAPI [7] | 90.75 (9.17) | 0.00 (100.0) | 83.88 | No | 0.1 | < 15 progeny/parent |
90:63(9:29) | 0:00(100:0) | 83.87 | 0.2 | |||
Merlin [13] | 70:59(29:38) | 69:60(29:47) | 69.74 | Yes | 299 | < 15 progeny/parent |
64:80(35:18) | 63:72(35:09) | 63.81 | 604 | |||
SHAPEIT2 [11] | 87:20(0:00) | 57:61(0:00) | NA | No | 70 | < 50 progeny/parent |
90:46(0:00) | 64:05(0:00) | 148 | ||||
iXora | 95:89(4:05) | 92:11(7:75)) | 95.55 | Yes | 0.3 | |
95:73(4:21) | 91:43(8:40) | 95.43 | 0.8 | |||