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Table 2 Results obtained by various haplotyping software on the experimentally determined ApoE dataset.

From: Shape-IT: new rapid and accurate algorithm for haplotype inference

ApoE 0%MD 5%MD
  IER IF IER MER IF
2snp 20.0 83.8 22.7 7.3 83.9
Fastphase 11.3 89.4 17.4 6.1 87.5
Gerbil 20.0 81.3 20.3 6.6 84.6
Ishape 5.6 94.1 10.2 5.9 92.5
Shape-IT 5.6 94.1 10.5 6.2 92.4
Phase v2.1 5.8 94.0 10.2 5.8 92.4
PLEM 12.5 89.8 16.0 6.5 88.7
  1. For the various software tested, we measured the percentage of individuals incorrectly reconstructed (IER), the percentage of missing data incorrectly inferred (MER), and the distance between real and inferred haplotype frequencies (IF) on the ApoE with complete genotypes and 5% random missing genotypes.