Exact tests for Linkage Disequilibrium (LD) and Hardy-Weinberg Equilibrium (HWE). - 2-sided LD tests based on different measures of LD (Kulinskaya and Lewin 2008) - 1-sided Fisher's exact test for LD - 2-sided Haldane test for HWE (Wiggington 2005) - 1-sided test for inbreeding - conditional p-values proposed in Kulinskaya (2008) to overcome the problems of asymetric distributions (for both LD and HWE)
LD2sided.pvals calculates LD p-values for the input table
Fisher1sided calculates Fisher's 1-sided p-values for LD for the input table
HWE2sided calculates HWE p-values for the input table
LD2sided.tables calculates LD p-values for an entire null distribution
HWE2sided.table calculates HWE p-values for an entire null distribution
Alex Lewin Maintainer: Alex Lewin <[email protected]>
Kulinskaya and Lewin 2008
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