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How is the HW proportion test calculated (chi-squared, exact, etc.)?

bredesonbredeson Member ✭✭
edited October 2012 in Ask the GATK team

How is the HW-proportion goodness-of-fit test calculated? Is the GATK using a chi-square (corrected or not) or an exact method? Is the calculation correctly taking into account multiple alleles (where applicable)?

Post edited by Geraldine_VdAuwera on

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