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GeneralizedUmatrix (version 1.2.1)

Credible Visualization for Two-Dimensional Projections of Data

Description

Projections are common dimensionality reduction methods, which represent high-dimensional data in a two-dimensional space. However, when restricting the output space to two dimensions, which results in a two dimensional scatter plot (projection) of the data, low dimensional similarities do not represent high dimensional distances coercively [Thrun, 2018] . This could lead to a misleading interpretation of the underlying structures [Thrun, 2018]. By means of the 3D topographic map the generalized Umatrix is able to depict errors of these two-dimensional scatter plots. The package is derived from the book of Thrun, M.C.: "Projection Based Clustering through Self-Organization and Swarm Intelligence" (2018) and the main algorithm called simplified self-organizing map for dimensionality reduction methods is published in .

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Version

Install

install.packages('GeneralizedUmatrix')

Monthly Downloads

727

Version

1.2.1

License

GPL-3

Maintainer

Michael Thrun

Last Published

October 25th, 2020

Functions in GeneralizedUmatrix (1.2.1)

EsomNeuronsAsList

Converts wts data (EsomNeurons) into the list form
GeneratePmatrix

Generates the P-matrix
sESOM4BMUs

simplified ESOM
ListAsEsomNeurons

Converts List to WTS
setdiffMatrix

setdiffMatrix shortens Matrix2Curt by those rows that are in both matrices.
DefaultColorSequence

Default color sequence for plots
Delta3DWeightsC

intern function
UmatrixColormap

U-Matrix colors
XYcoords2LinesColumns

XYcoords2LinesColumns(X,Y) Converts points given as x(i),y(i) coordinates to integer coordinates Columns(i),Lines(i)
plotTopographicMap

Visualizes the Generalized U-matrix in 3D
addRowWiseC

intern function
Chainlink

Chainlink is part of the Fundamental Clustering Problem Suit (FCPS) [Thrun/Ultsch, 2020].
CalcUstarmatrix

Calculate the U*matrix for a given Umatrix and Pmatrix.
trainstepC

internal function for s-esom
upscaleUmatrix

Upscale a Umatrix grid
GeneralizedUmatrix-package

GeneralizedUmatrix
ExtendToroidalUmatrix

Extend Toroidal Umatrix
NormalizeUmatrix

Normalize Umatrix
TopviewTopographicMap

Topview of Topographic Map ind 2D
GeneralizedUmatrix

Generalized U-Matrix for Projection Methods published in [Thrun/Ultsch, 2020]