| nMDS-class {dimRed} | R Documentation |
Non-Metric Dimensional Scaling
Description
An S4 Class implementing Non-Metric Dimensional Scaling.
Details
A non-linear extension of MDS using monotonic regression
Slots
funA function that does the embedding and returns a dimRedResult object.
stdparsThe standard parameters for the function.
General usage
Dimensionality reduction methods are S4 Classes that either be used
directly, in which case they have to be initialized and a full
list with parameters has to be handed to the @fun()
slot, or the method name be passed to the embed function and
parameters can be given to the ..., in which case
missing parameters will be replaced by the ones in the
@stdpars.
Parameters
nMDS can take the following parameters:
- d
A distance function.
- ndim
The number of embedding dimensions.
Implementation
Wraps around the
monoMDS. For parameters that are not
available here, the standard configuration is used.
References
Kruskal, J.B., 1964. Nonmetric multidimensional scaling: A numerical method. Psychometrika 29, 115-129. https://doi.org/10.1007/BF02289694
See Also
Other dimensionality reduction methods:
AutoEncoder-class,
DRR-class,
DiffusionMaps-class,
DrL-class,
FastICA-class,
FruchtermanReingold-class,
HLLE-class,
Isomap-class,
KamadaKawai-class,
MDS-class,
NNMF-class,
PCA-class,
PCA_L1-class,
UMAP-class,
dimRedMethod-class,
dimRedMethodList(),
kPCA-class,
tSNE-class
Examples
if(requireNamespace("vegan", quietly = TRUE)) {
dat <- loadDataSet("3D S Curve", n = 300)
emb <- embed(dat, "nMDS")
plot(emb, type = "2vars")
}