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Table 2 Performances of haplotyping programs on analyzing 500 randomly selected haplotype blocks of the 30 African mothers' genotypes on X-chromosome from the HapMap data.

From: Empirical vs Bayesian approach for estimating haplotypes from genotypes of unrelated individuals

Performances

Empirical Method

Bayesian Method

 

PL-EM

HPlus

PHASE

HAPLOTYPER*

Similarity Index

    

Mean

0.988

0.988

0.987

0.998

Median

1.0

1.0

1.0

1.0

Standard deviation

0.025

0.024

0.027

0.025

Range

(0.833, 1.0)

(0.833, 1.0)

(0.689,1.0)

(0.833,1.0)

Prediction Rate

    

Mean

0.987

0.987

0.987

0.987

Median

1.0

1.0

1.0

1.0

Standard deviation

0.027

0.027

0.030

0.027

Range

(0.800, 1.0)

(0.800, 1.0)

(0.683, 1.0)

(0.800, 1.0)

Running Time (in second)

15

7

1174

37

  1. *: HAPLOTYPER failed to resolve 2 of the 500 haplotype blocks.