mclust (version 2.1-14)

hc: Model-based Hierarchical Clustering

Description

Agglomerative hierarchical clustering based on maximum likelihood criteria for MVN mixture models parameterized by eigenvalue decomposition.

Usage

hc(modelName, data, ...)

Arguments

modelName

A character string indicating the model. Possible models: "E" : equal variance (one-dimensional) "V" : spherical, variable variance (one-dimensional) "EII": spherical, equal volume "VII": spherical, unequal volume "EEE": ellipsoidal, equal volume,

data

A numeric vector, matrix, or data frame of observations. Categorical variables are not allowed. If a matrix or data frame, rows correspond to observations and columns correspond to variables.

...

Arguments for the method-specific hc functions. See hcE.

Value

• A numeric two-column matrix in which the ith row gives the minimum index for observations in each of the two clusters merged at the ith stage of agglomerative hierarchical clustering.

References

J. D. Banfield and A. E. Raftery (1993). Model-based Gaussian and non-Gaussian Clustering. Biometrics 49:803-821. C. Fraley (1998). Algorithms for model-based Gaussian hierarchical clustering. SIAM Journal on Scientific Computing 20:270-281. See http://www.stat.washington.edu/mclust. C. Fraley and A. E. Raftery (2002a). Model-based clustering, discriminant analysis, and density estimation. Journal of the American Statistical Association 97:611-631. See http://www.stat.washington.edu/mclust. C. Fraley and A. E. Raftery (2002b). MCLUST:Software for model-based clustering, density estimation and discriminant analysis. Technical Report, Department of Statistics, University of Washington. See http://www.stat.washington.edu/mclust.

Details

Most models have memory usage of the order of the square of the number groups in the initial partition for fast execution. Some models, such as equal variance or "EEE", do not admit a fast algorithm under the usual agglomerative hierarchical clustering paradigm. These use less memory but are much slower to execute.

See Also

hcE,..., hcVVV, hclass

Examples

data(iris)
irisMatrix <- as.matrix(iris[,1:4])

hcTree <- hc(modelName = "VVV", data = irisMatrix)
cl <- hclass(hcTree,c(2,3))

par(pty = "s", mfrow = c(1,1))
clPairs(irisMatrix,cl=cl[,"2"])
clPairs(irisMatrix,cl=cl[,"3"])

par(mfrow = c(1,2))
dimens <- c(1,2)
coordProj(irisMatrix, classification=cl[,"2"], dimens=dimens)
coordProj(irisMatrix, classification=cl[,"3"], dimens=dimens)