fpc: localshape – R documentation

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localshape

Local shape matrix

Description

This computes a matrix formalising 'local shape', i.e., aggregated standardised variance/covariance in a Mahalanobis neighbourhood of the data points. This can be used for finding clusters when used as one of the covariance matrices in Invariant Coordinate Selection (function ics in package ICS), see Hennig's discussion and rejoinder of Tyler et al. (2009).

Usage

localshape(xdata,proportion=0.1,mscatter="mcd",mcdalpha=0.8,
                       covstandard="det")

Arguments

`xdata`	objects times variables data matrix.
`proportion`	proportion of points to be considered as neighbourhood.
`mscatter`	"mcd" or "cov"; specified minimum covariance determinant or classical covariance matrix to be used for Mahalanobis distance computation.
`mcdalpha`	if `mscatter="mcd"`, this is the alpha parameter to be used by the MCD covariance matrix, i.e. one minus the asymptotic breakdown point, see `covMcd`.
`covstandard`	one of "trace", "det" or "none", determining by what constant the pointwise neighbourhood covariance matrices are standardised. "det" makes the affine equivariant, as noted in the discussion rejoinder of Tyler et al. (2009).

Value

The local shape matrix.

Author(s)

Christian Hennig christian.hennig@unibo.it https://www.unibo.it/sitoweb/christian.hennig/en

References

Tyler, D. E., Critchley, F., Duembgen, L., Oja, H. (2009) Invariant coordinate selection (with discussion). Journal of the Royal Statistical Society, Series B, 549-592.

Examples

options(digits=3)
  data(iris)
  localshape(iris[,-5],mscatter="cov")

fpc

Flexible Procedures for Clustering

v2.2-9

GPL

Authors

Christian Hennig <christian.hennig@unibo.it>

Initial release

2020-12-06