Table 2. Runtimes on simulated data sets with in-sample LD matrix.
Average runtimes are taken over 600 simulations. All runtimes are in seconds. All runtimes include the time taken to read the data and write the results to files.
| method | min. | average | max. |
|---|---|---|---|
| SuSiE-RSS, estimated σ, no refinement | 0.65 | 1.33 | 18.89 |
| SuSiE-RSS, estimated σ, with refinement | 1.62 | 5.50 | 72.57 |
| SuSiE-RSS, fixed σ, no refinement | 0.40 | 1.40 | 18.61 |
| SuSiE-RSS, fixed σ, with refinement | 1.44 | 4.81 | 62.34 |
| SuSiE-RSS, fixed σ, with refinement, L = true | 0.37 | 1.52 | 4.95 |
| DAP-G | 0.66 | 5.70 | 371.76 |
| FINEMAP | 1.67 | 16.11 | 39.27 |
| FINEMAP, L = true | 1.00 | 12.92 | 42.93 |
| CAVIAR, L = true | 3.54 | 1,516.91 | 4,831.95 |