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GeneralizedUmatrix: Credible Visualization for Two-Dimensional Projections of Data

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] <doi:10.1007/978-3-658-20540-9>. 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) <doi:10.1007/978-3-658-20540-9> and the main algorithm called simplified self-organizing map for dimensionality reduction methods is published in <doi:10.1016/j.mex.2020.101093>.

Version: 1.2.6
Depends: R (≥ 3.0)
Imports: Rcpp (≥ 1.0.8), RcppParallel (≥ 5.1.4), ggplot2
LinkingTo: Rcpp, RcppArmadillo, RcppParallel
Suggests: DataVisualizations, rgl, grid, mgcv, png, reshape2, fields, ABCanalysis, plotly, deldir, methods, knitr (≥ 1.12), rmarkdown (≥ 0.9)
Published: 2023-05-30
DOI: 10.32614/CRAN.package.GeneralizedUmatrix
Author: Michael Thrun ORCID iD [aut, cre, cph], Felix Pape [ctb, ctr], Tim Schreier [ctb, ctr], Luis Winckelman [ctb, ctr], Quirin Stier [ctb, ctr], Alfred Ultsch [ths]
Maintainer: Michael Thrun <m.thrun at gmx.net>
BugReports: https://github.com/Mthrun/GeneralizedUmatrix/issues
License: GPL-3
URL: https://www.deepbionics.org
NeedsCompilation: yes
SystemRequirements: GNU make, pandoc (>=1.12.3, needed for vignettes)
Citation: GeneralizedUmatrix citation info
Materials: README
CRAN checks: GeneralizedUmatrix results

Documentation:

Reference manual: GeneralizedUmatrix.pdf
Vignettes: Uncovering High-Dimensional Structures of Projections from Dimensionality Reduction Methods

Downloads:

Package source: GeneralizedUmatrix_1.2.6.tar.gz
Windows binaries: r-devel: GeneralizedUmatrix_1.2.6.zip, r-release: GeneralizedUmatrix_1.2.6.zip, r-oldrel: GeneralizedUmatrix_1.2.6.zip
macOS binaries: r-release (arm64): GeneralizedUmatrix_1.2.6.tgz, r-oldrel (arm64): GeneralizedUmatrix_1.2.6.tgz, r-release (x86_64): GeneralizedUmatrix_1.2.6.tgz, r-oldrel (x86_64): GeneralizedUmatrix_1.2.6.tgz
Old sources: GeneralizedUmatrix archive

Reverse dependencies:

Reverse imports: DatabionicSwarm, ProjectionBasedClustering
Reverse suggests: FCPS

Linking:

Please use the canonical form https://CRAN.R-project.org/package=GeneralizedUmatrix to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.