Table 1.
Total Execution Times and Speedups for Simulated Data Sets with and without Selection.
| Sequences | SNPs | SweepFinder |
SweeD |
Speedup |
|||
|---|---|---|---|---|---|---|---|
| Neutral | Selection | Neutral | Selection | Neutral | Selection | ||
| 50 | 10,000 | 199.908 | 434.744 | 142.200 | 399.440 | 1.406 | 1.088 |
| 50 | 100,000 | 2,005.075 | 4,380.188 | 1,085.240 | 3,563.890 | 1.848 | 1.229 |
| 50 | 1,000,000 | 34,563.920 | 52,560.680 | 8,881.410 | 32,466.250 | 3.892 | 1.619 |
| 100 | 10,000 | 207.123 | 427.885 | 142.650 | 400.050 | 1.452 | 1.070 |
| 100 | 100,000 | 1,924.353 | 3,695.948 | 1,082.370 | 2,890.020 | 1.778 | 1.279 |
| 100 | 1,000,000 | 32,140.840 | 45,531.370 | 9,013.630 | 23,762.100 | 3.566 | 1.916 |
| 500 | 10,000 | 984.357 | 869.217 | 158.730 | 181.100 | 6.201 | 4.800 |
| 500 | 100,000 | 2,548.083 | 2,991.866 | 1,121.820 | 1,841.540 | 2.271 | 1.625 |
| 500 | 1,000,000 | 23,431.980 | 45,118.190 | 9,091.370 | 16,684.070 | 2.577 | 2.704 |
| 750 | 10,000 | 2,382.910 | 2,418.270 | 186.660 | 231.510 | 12.766 | 10.446 |
| 750 | 100,000 | 4,172.555 | 4,657.067 | 1,120.780 | 1,810.410 | 3.723 | 2.572 |
| 750 | 1,000,000 | 29,006.060 | —* | 9,181.570 | 20,601.350 | 3.159 | —* |
| 1,000 | 10,000 | 5,375.578 | 5,385.314 | 244.460 | 270.410 | 21.990 | 19.915 |
| 1,000 | 100,000 | 7,031.194 | 7,435.575 | 1,173.320 | 1,751.660 | 5.993 | 4.245 |
| 1,000 | 1,000,000 | 27,360.160 | 29,893.300 | 9,214.810 | 13,036.350 | 2.969 | 2.293 |
*SweepFinder terminated abruptly due to a failed assertion: “SweepFinder: SweepFinder.c:595: ln_likelihood: assertion P ≥ 0.0, P < 1.00000001 failed.”