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MARKER beta

Chi squared and its p-value

Chi squared is calculated as shown in Genetic Data Analysis by Bruce S. Weir (Sinauer Associates), equation 3.11 on page 117. If n is the number of individuals (2n is the number of chromosomes)

chi squared Χ2 = (2n) D2 / fA fa fB fb

The probability of the chi squared statistic is given by the area under the chi squared distribution between Χ2 and infinity. If we are considering a pair of biallelic markers there is 1 degree of freedom and the p-value is calculated as follows:

2)-0.5 e-Χ2/2 / (2π)0.5