TABLE 4.
Accuracy of GEBVs (ρAÂ); mean absolute difference between true and estimated values of δ, q, a, and R2; and number of MCMC rounds per hour for sampling SNP and QTL variables for the two-step approach using (a) pedigree blocking and (b) a locus block size of four with two overlapping loci (SE based on 32 replicates)
| Mean absolute differencea |
No. of MCMC rounds per hrb |
||||||
|---|---|---|---|---|---|---|---|
| Alternative |
 ac
|
δ, cM | q | a | R2 | SNPs | QTL |
| a | 0.78 | 0.075 | 0.38 | 0.074 | 0.43 | 2731* (±86) | 3618 (±122) |
| b | 0.77* | 0.075 | 0.39* | 0.076 | 0.42 | 3455* (±52) | 3618 (±118) |
a
Criteria with superscript (*) are significantly different (P < 0.05) compared to a locus block size of eight with three overlapping and no pedigree blocking.
b
The exact approach was run for 24 hr and each step of the two-step approach for 12 hr.
c
.