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Comparison using all SNPs of chromosomes 1, 2, 3, 4, and 6
| Absolute difference with respect to Bayesian | ||||
| Mean difference with respect to Bayesian | Mean | Maximum | Max Zpairs | |
| Bayesian 1st order Markov | NA | NA | NA | 1.657 |
| ML 1st order Markov | 0.027 | 0.029 | 0.115 | 1.691 |
| Clustered markers r2 < 0.10 | 0.067 | 0.093 | 0.914 | 1.724 |
| Clustered markers r2 < 0.05 | -0.118 | 0.231 | 1.498 | 1.424 |
| Ind. SNPs r2 < 0.10 | 0.118 | 0.135 | 0.4963 | 1.816 |
| Ignore LD | 0.169 | 0.173 | 0.659 | 1.894 |
