ContTrustMeasure | R Documentation |
Computes trustworthiness and continuity for projected data (see [Kaski2003]).
ContTrustMeasure(datamat, projmat, lastNeighbor)
datamat |
numerical matrix of data: n cases in rows, d variables in columns |
projmat |
numerical matrix of projected data: n cases in rows, k variables in columns, where k is the projection output dimension |
lastNeighbor |
scalar, maximal size of neighborhood to be considered |
C++ source code comes from https://research.cs.aalto.fi/pml/software/dredviz/
numerical [k,7] matrix, where k is the lastNeighbor value. The matrix contains the columns:
Neighborhood size; worst-case trustworthiness; average trustworthiness; best-case trustworthiness; worst-case continuity; average continuity; best-case continuity
where neighborhood size is the size of the neighberhood considered, which ranges from 1:lastNeighbor
Michael Thrun
[Kaski2003]: Samuel Kaski, Janne Nikkilä, Merja Oja, Jarkko Venna, Petri Törönen, and Eero Castren. Trustworthiness and metrics in visualizing similarity of gene expression. BMC Bioinformatics, 4:48, 2003.
An alternative measure is the KLMeasure
data('Hepta')
Data=Hepta$Data
res=MDS(Data)
Proj = res$ProjectedPoints
PlotProjectedPoints(res$ProjectedPoints,Hepta$Cls)
ContTrustMeasure(Hepta$Data, Proj, 10)
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