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Time Comparison of BOOST, PLINK, and INTERSNP
| Data Size | BOOST | PLINK | INTERSNP |
|---|---|---|---|
| n = 5000, L = 1000 | < 2s | 106s | 160s |
| n = 5000, L = 5000 | 42s | 2703s | 4277s |
| n = 5000, L = 10,000 | 170s | 10,915s | 15,805s |
PLINK is tested with the “–fast-epistasis” option and without the “–case-only” option. All timings are carried out on a 3.0 GHz CPU with 4G memory running the Windows XP Professional system.
