do.adr {Rdimtools}

Adaptive Dimension Reduction

Description

Adaptive Dimension Reduction (Ding et al. 2002) iteratively finds the best subspace to perform data clustering. It can be regarded as one of remedies for clustering in high dimensional space. Eigenvectors of a between-cluster scatter matrix are used as basis of projection.

Usage

do.adr(X, ndim = 2, ...)

Arguments

X

an (n\times p) matrix or data frame whose rows are observations.

ndim

an integer-valued target dimension.

...

extra parameters including

maxiter

maximum number of iterations (default: 100).

abstol

absolute tolerance stopping criterion (default: 1e-8).

Value

a named Rdimtools S3 object containing

Y

an (n\times ndim) matrix whose rows are embedded observations.

projection

a (p\times ndim) whose columns are basis for projection.

trfinfo

a list containing information for out-of-sample prediction.

algorithm

name of the algorithm.

References

Ding C, Xiaofeng He, Hongyuan Zha, Simon HD (2002). “Adaptive Dimension Reduction for Clustering High Dimensional Data.” In Proceedings 2002 IEEE International Conference on Data Mining, 147–154.

See Also

do.ldakm

Examples

## load iris data
data(iris)
set.seed(100)
subid = sample(1:150,50)
X     = as.matrix(iris[subid,1:4])
label = as.factor(iris[subid,5])

## compare ADR with other methods
outADR = do.adr(X)
outPCA = do.pca(X)
outLDA = do.lda(X, label)

## visualize
opar <- par(no.readonly=TRUE)
par(mfrow=c(1,3))
plot(outADR$Y, col=label, pch=19, main="ADR")
plot(outPCA$Y, col=label, pch=19, main="PCA")
plot(outLDA$Y, col=label, pch=19, main="LDA")
par(opar)