Table 6. Running times for GeneImp and BEAGLE imputation with different target sample sizes (100 kb from chromosome 22).
| Method | Time in Minutes for 16 Target Samplesa | Time in Minutes for 128 Target Samples | Allocated CPUsb |
|---|---|---|---|
| GeneImp; single-window | 6.9 | 24.4 | 16 parallel processes (doMC R package) |
| BEAGLE | 615 | 2646 | 32 parallel threads (nthreads option) |
a
We report the elapsed time between start and finish of the experiment. This was recorded using the time unix command for BEAGLE and the proc.time() R function for GeneImp. The server was solely used for this job during this time.
b
Experiments performed on a server with 4× Intel Xeon E5-4650 processors, with 2.70 GHz and eight cores (16 threads) each and 1 TB RAM.