Umatrix (version 4.0.1)

pmatrixForEsom: pmatrixForEsom

Description

Generates a Pmatrix based on the weights of an ESOM.

Value

UstarMatrix

Arguments

Data

A [n,k] matrix containing the data

Weights

Weights stored as a list in a 2D matrix

Lines

Number of lines of the SOM that is described by weights

Columns

Number of columns of the SOM that is described by weights

Radius

The radius for measuring the density within the hypersphere

PlotIt

If set the Pmatrix will also be plotted

Toroid

Are BestMatches placed on a toroid grid? TRUE by default

References

Ultsch, A.: Maps for the visualization of high-dimensional data spaces, Proc. Workshop on Self organizing Maps (WSOM), pp. 225-230, Kyushu, Japan, 2003.

Ultsch, A., Loetsch, J.: Computed ABC Analysis for Rational Selection of Most Informative Variables in Multivariate Data, PloS one, Vol. 10(6), pp. e0129767. doi 10.1371/journal.pone.0129767, 2015.

Thrun, M. C., Lerch, F., Loetsch, J., Ultsch, A.: Visualization and 3D Printing of Multivariate Data of Biomarkers, in Skala, V. (Ed.), International Conference in Central Europe on Computer Graphics, Visualization and Computer Vision,Plzen, 2016.

Examples

data("Hepta")
e = esomTrain(Hepta$Data, Key = 1:nrow(Hepta$Data))
Pmatrix = pmatrixForEsom(Hepta$Data,
                         e$Weights,
                         e$Lines,
                         e$Columns,
                         e$Toroid)
plotMatrix(Pmatrix, ColorStyle = "Pmatrix")