VGAM (version 1.1-2)

A1A2A3: The A1A2A3 Blood Group System

Description

Estimates the three independent parameters of the the A1A2A3 blood group system.

Usage

A1A2A3(link = "logitlink", inbreeding = FALSE, ip1 = NULL, ip2 = NULL, iF = NULL)

Arguments

link

Link function applied to p1, p2 and f. See Links for more choices.

inbreeding

Logical. Is there inbreeding?

ip1, ip2, iF

Optional initial value for p1, p2 and f.

Value

An object of class "vglmff" (see vglmff-class). The object is used by modelling functions such as vglm and vgam.

Details

The parameters p1 and p2 are probabilities, so that p3=1-p1-p2 is the third probability. The parameter f is the third independent parameter if inbreeding = TRUE. If inbreeding = FALSE then \(f = 0\) and Hardy-Weinberg Equilibrium (HWE) is assumed.

References

Lange, K. (2002) Mathematical and Statistical Methods for Genetic Analysis, 2nd ed. New York: Springer-Verlag.

See Also

AA.Aa.aa, AB.Ab.aB.ab, ABO, MNSs.

Examples

# NOT RUN {
ymat <- cbind(108, 196, 429, 143, 513, 559)
fit <- vglm(ymat ~ 1, A1A2A3(link = probitlink), trace = TRUE, crit = "coef")
fit <- vglm(ymat ~ 1, A1A2A3(link = logitlink, ip1 = 0.3, ip2 = 0.3, iF = 0.02),
            trace = TRUE, crit = "coef")
Coef(fit)  # Estimated p1 and p2
rbind(ymat, sum(ymat) * fitted(fit))
sqrt(diag(vcov(fit)))
# }