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Table 1 Comparison using all SNPs of chromosomes 1, 2, 3, 4, and 6

From: Modeling linkage disequilibrium in exact linkage computations: a comparison of first-order Markov approaches and the clustered-markers approach

   Absolute difference with respect to Bayesian  
  Mean difference with respect to Bayesian Mean Maximum Max Z pairs
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