Table 2 Adjusted power and rank of the simulated founder haplotypes among all the regions found by HaploShare, BEAGLE fastIBD, and DASH
From: HaploShare: identification of extended haplotypes shared by cases and evaluation against controls
Software | HaploShare | BEAGLE fastIBD | DASH + GERMLINE | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
Threshold | Pair-wise IBD >1.0 cM, P <0.05 | Pair-wise IBD >0.5 cM, P <0.05 | fastIBD score <10−10 | <10−12 15 found | Pair-wise IBD >0.5 cM | |||||||
Total number of haplotypes founda | 5 found | 32 found | 139 found | Â | 89 found | |||||||
Number of samples sharing the simulated haplotype | 2 | 5 | 10 | 2 | 5 | 10 | 2 | 2 | 2 | 5 | 10 | |
Age of simulated founder haplotype (generations) | 10 | 1 (74) | 1 (83) | 1 (99) | 4 (91) | 3 (95) | 3 (99) | 32 (95) | 11 (35) | 50 (65) | 46(75) | 38 (82) |
20 | 1 (60) | 1 (78) | 1 (86) | 10 (73) | 8 (85) | 6 (90) | 45 (69) | 13 (21) | 60 (53) | 57 (65) | 54 (71) | |
30 | 2 (34) | 2 (47) | 1 (60) | 20 (50) | 19 (64) | 15 (72) | 88 (41) | 14 (16) | 68 (41) | 65 (49) | 64 (52) | |
40 | 3 (19) | 3 (26) | 2 (39) | 24 (39) | 23 (47) | 21 (53) | 107 (34) | 15 (12) | 75 (35) | 75 (39) | 75 (45) | |
50 | 5 (09) | 4 (13) | 3 (23) | 27 (32) | 27 (39) | 27 (41) | 125 (28) | 15 (11) | 76 (30) | 80 (33) | 80 (37) | |