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Table 3 Comparison of switch error rates.

From: Improved IBD detection using incomplete haplotype information

n L IBD BGL BOTH
50 10 3.88% 6.17% 2.41%
100 10 2.99% 4.54% 1.81%
200 10 1.96% 2.23% 1.18%
50 5 3.73% 4.87% 1.83%
100 5 2.13% 2.02% 1.01%
200 5 1.47% 1.01% 0.63%
50 2 3.81% 3.16% 1.57%
100 2 2.70% 1.20% 0.62%
200 2 1.55% 0.55% 0.35%
  1. The table shows results for the switch error rate by, respectively, our phase update algorithm (see Appendix C for pseudocode) in the IBD column, the BEAGLE algorithm in the BGL column, and the combined approach in the BOTH column for a dataset simulated by using N = 10000 as the size of the original population, T = 100 as the number of generations for which the population was simulated, n as the size of the family sampled, t = 5 as the number of generations for which the family was simulated, L as the genetic length in centimorgans of the haplotypes simulated, and s = 400 as the number of SNPs in the haplotype.