| hCBS | SSVS | BLA | BRR | |||||||||
 |
TP | FP | TP | FP | TP95 | FP95 | TP90 | FP90 | TP95 | FP95 | TP90 | FP90 |
| 1 | 19 | 2 | 19 | 1 | 15 | 3 | 19 | 5 | 19 | 31 | 20 | 57 |
| 5 | 18 | 6 | 17 | 2 | 10 | 0 | 11 | 2 | 11 | 8 | 15 | 22 |
| 20 | 15 | 4 | 14 | 3 | 3 | 0 | 4 | 0 | 2 | 0 | 3 | 0 |
| 50 | 14 | 4 | 14 | 3 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 |
were simulated.
|
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| Table 3: True and false positive detections by all methods when applied to the real
cattle LD data (4697 SNPs from chromosome 1 and 2) with 20 SNPs associated
to the phenotype, 10 inside of LD-blocks and 10 correlated SNPs outside of LDblocks.
Four different values for the error variancewere simulated. |
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