|  | Variants | Basic coalescent | IMPUTE2 | |||
---|---|---|---|---|---|---|---|
Nsim | MAF | N (%) | Mean | (95% CI) | Mean | (95% CI) | |
Baseline simulation scenario a | |||||||
1000 | all | 96 | (100.0) | 0.95 | (0.94,0.96) | 0.77 | (0.74,0.81) |
 | ≤0.01 | 30 | (31.3) | 0.97 | (0.96,0.98) | 0.90 | (0.88,0.92) |
 | >0.01, ≤0.05 | 24 | (25.0) | 0.94 | (0.93,0.95) | 0.85 | (0.83,0.87) |
 | >0.05 | 42 | (43.8) | 0.93 | (0.92,0.95) | 0.62 | (0.58,0.66) |
Total number of simulated haplotypes | |||||||
800 | all | 88 | (100.0) | 0.91 | (0.89,0.94) | 0.77 | (0.72,0.82) |
 | ≤0.01 | 27 | (30.7) | 0.99 | (0.98,0.99) | 0.99 | (0.98,1.00) |
 | >0.01, ≤0.05 | 25 | (28.4) | 0.95 | (0.93,0.97) | 0.91 | (0.89,0.93) |
 | >0.05 | 36 | (40.9) | 0.83 | (0.78,0.89) | 0.52 | (0.47,0.58) |
600 | all | 90 | (100.0) | 0.97 | (0.96,0.99) | 0.66 | (0.61,0.71) |
 | ≤0.01 | 15 | (16.7) | 0.99 | (0.98,1.00) | 0.98 | (0.97,0.99) |
 | >0.01, ≤0.05 | 14 | (15.6) | 0.93 | (0.91,0.95) | 0.92 | (0.89,0.94) |
 | >0.05 | 61 | (67.8) | 0.98 | (0.96,1.00) | 0.52 | (0.49,0.55) |
400 | all | 87 | (100.0) | 0.92 | (0.90,0.95) | 0.77 | (0.73,0.81) |
 | ≤0.01 | 19 | (21.8) | 0.98 | (0.97,0.99) | 0.97 | (0.96,0.98) |
 | >0.01, ≤0.05 | 28 | (32.2) | 0.95 | (0.93,0.96) | 0.88 | (0.83,0.92) |
 | >0.05 | 40 | (46.0) | 0.88 | (0.82,0.94) | 0.59 | (0.56,0.62) |
200 | all | 89 | (100.0) | 0.89 | (0.86,0.92) | 0.76 | (0.72,0.79) |
 | ≤0.01 | 10 | (11.2) | 0.97 | (0.96,1.00) | 0.97 | (0.96,0.99) |
 | >0.01, ≤0.05 | 28 | (31.5) | 0.91 | (0.89,0.94) | 0.90 | (0.88,0.93) |
 | >0.05 | 51 | (57.3) | 0.85 | (0.81,0.90) | 0.64 | (0.61,0.67) |