gofhwex {EQUIVNONINF} | R Documentation |
The function computes the critical constants defining the uniformly most
powerful unbiased test for equivalence of the population distribution of the three genotypes
distinguishable in terms of a single nucleotide polymorphism (SNP), to a distribution
being in Hardy-Weinberg equilibrium (HWE).
The test is conditional on the total count S of alleles of the kind of interest, and
the parameter θ, in terms of which equivalence shall be established, is defined
by θ = \frac{π_2^2}{π_1(1-π_1-π_2)}, with π_1 and π_2 denoting
the population frequence of homozygotes of the 1st kind and heterozygotes, respectively.
gofhwex(alpha,n,s,del1,del2)
alpha |
significance level |
n |
number of genotyped individuals |
s |
observed count of alleles of the kind of interest |
del1 |
absolute value of the lower equivalence limit to θ/4 - 1 |
del2 |
upper equivalence limit to θ/4 - 1 |
alpha |
significance level |
n |
number of genotyped individuals |
s |
observed count of alleles of the kind of interest |
del1 |
absolute value of the lower equivalence limit to θ/4 - 1 |
del2 |
upper equivalence limit to θ/4 - 1 |
C1 |
left-hand limit of the critical interval for the observed number X_2 of heterozygotes |
C2 |
right-hand limit of the critical interval for the observed number X_2 |
GAM1 |
probability of rejecting the null hypothesis when it turns out that X_2=C_1 |
GAM2 |
probability of rejecting the null hypothesis for X_2=C_2 |
Stefan Wellek <stefan.wellek@zi-mannheim.de>
Peter Ziegler <peter.ziegler@zi-mannheim.de>
Wellek S: Tests for establishing compatibility of an observed genotype distribution with Hardy-Weinberg equilibrium in the case of a biallelic locus. Biometrics 60 (2004), 694-703.
Goddard KAB, Ziegler A, Wellek S: Adapting the logical basis of tests for Hardy-Weinberg equilibrium to the real needs of association studies in human and medical genetics. Genetic Epidemiology 33 (2009), 569-580.
Wellek S: Testing statistical hypotheses of equivalence and noninferiority. Second edition. Boca Raton: Chapman & Hall/CRC Press, 2010, Par. 9.4.2.
gofhwex(0.05,475,429,1-1/1.96,0.96)