ShepardDensityScatter: Shepard PDE scatter

In Mthrun/DataVisualizations: Visualizations of High-Dimensional Data

Shepard PDE scatter

Description

Draws ein Shepard Diagram (scatterplot of distances) with an two-dimensional PDE density estimation .

Usage

ShepardDensityScatter(InputDists, OutputDists, Plotter= "native", Type = "DDCAL",
DensityEstimation="SDH", Marginals = FALSE, xlab='Input Distances',
ylab='Output Distances',main='ProjectionMethod', sampleSize=500000)

Arguments

InputDists	[1:n,1:n] with n cases of data in d variables/features: Matrix containing the distances of the inputspace.
OutputDists	[1:n,1:n] with n cases of data in d dimensionalites of the projection method variables/features: Matrix containing the distances of the outputspace.
Plotter	Optional, either "native" or "plotly"
Type	Optional, either "DDCAL" which creates a special hard color transition sensitive to density-based structures or "Standard" which creates a standard continuous color transition which is proven to be not very sensitive for complex density-based structures.
DensityEstimation	Optional, use either "SDH" or "PDE" for data density estimation.
Marginals	Optional, either TRUE (draw Marginals) or FALSE (do not draw Marginals)
xlab	Label of the x axis in the resulting Plot.
ylab	Label of the y axis in the resulting Plot.
main	Title of the Shepard diagram
sampleSize	Optional, default(500000), reduces a.ount of data for density estimation, if too many distances given

Details

Introduced and described in [Thrun, 2018, p. 63] with examples in [Thrun, 2018, p. 71-72]

Author(s)

Michael Thrun

References

[Thrun, 2018] Thrun, M. C.: Projection Based Clustering through Self-Organization and Swarm Intelligence, doctoral dissertation 2017, Springer, ISBN: 978-3-658-20540-9, Heidelberg, 2018.

Examples

data("Lsun3D")
Cls=Lsun3D$Cls
Data=Lsun3D$Data
InputDist=as.matrix(dist(Data))
res = stats::cmdscale(d = InputDist, k = 2, eig = TRUE, 
        add = FALSE, x.ret = FALSE)

ProjectedPoints = as.matrix(res$points)
ShepardDensityScatter(InputDist,as.matrix(dist(ProjectedPoints)),main = 'MDS')
ShepardDensityScatter(InputDist[1:100,1:100],

as.matrix(dist(ProjectedPoints))[1:100,1:100],main = 'MDS')

Mthrun/DataVisualizations documentation built on Jan. 16, 2024, 1:01 a.m.