object.distances: Calculate distances between object vectors in a SOM

In kohonen: Supervised and Unsupervised Self-Organising Maps

Calculate distances between object vectors in a SOM

Description

This function calculates the distance between objects using the distance functions, weights and other attributes of a trained SOM. This function is used in the calculation of the U matrix in function plot.kohonen using the type = "dist.neighbours" argument.

Usage

object.distances(kohobj, type = c("data", "codes"), whatmap)

Arguments

kohobj	An object of class kohonen.
type	Whether to calculate distances between the data objects, or the codebook vectors.
whatmap	What data layers to use. If unspecified the data layers defined in the kohonen object are used.

Value

An object of class dist, which can be directly fed into (e.g.) a hierarchical clustering.

Author(s)

Ron Wehrens

References

R. Wehrens and J. Kruisselbrink, submitted, 2017.

See Also

unit.distances, supersom

Examples

data(wines)
set.seed(7)
sommap <- supersom(list(measurements = scale(wines),
                        vintages = vintages),
                   grid = somgrid(6, 4, "hexagonal"))
obj.dists <- object.distances(sommap, type = "data")
code.dists <- object.distances(sommap, type = "codes")

kohonen documentation built on July 9, 2023, 7:40 p.m.