eigen.test: Difference test for successive relative eigenvalues

In vcvComp: Comparison of Variance - Covariance Patterns

Description

Tests the difference between two successive relative eigenvalues

Usage

eigen.test(n, relValues)

Arguments

n	the sample size(s), given as a number or a vector of length 2
relValues	a vector of relative eigenvalues

Value

The P-values for the test of difference between successive eigenvalues

References

Mardia KV, Kent JT, Bibby JM (1979) Multivariate analysis. Academic Press, London.

See Also

relative.eigen for the computation of relative eigenvalues,

pchisq for Chi-squared distribution

Examples

# Data matrix of 2D landmark coordinates
data("Tropheus.IK.coord")
coords <- which(names(Tropheus.IK.coord) == "X1"):which(names(Tropheus.IK.coord) == "Y19")
proc.coord <- as.matrix(Tropheus.IK.coord[coords])

# Data reduction
phen.pca <- prcomp(proc.coord, rank. = 5, tol = sqrt(.Machine$double.eps))
pc.scores <- phen.pca$x

# Covariance matrix of each population
S.phen.pop <- cov.group(pc.scores, groups = Tropheus.IK.coord$POP.ID)

# Relative PCA = relative eigenanalysis between 2 covariance matrices
# (population IKA1 relative to IKS5)
relEigen.a1s5 <- relative.eigen(S.phen.pop[, , "IKA1"], S.phen.pop[, , "IKS5"])

# Test of the difference between 2 successives eigenvalues
# of the covariance matrix of IKA1 relative to IKS5
n_ika1 <- length(which(Tropheus.IK.coord$POP.ID == "IKA1"))  # sample size for IKA1
n_iks5 <- length(which(Tropheus.IK.coord$POP.ID == "IKS5"))  # sample size for IKS5
eigen.test(n = c(n_ika1, n_iks5), relValues = relEigen.a1s5$relValues)

vcvComp documentation built on Dec. 17, 2020, 9:07 a.m.