yasomi: Yet Another Self Organising Map Implementation

Yasomi provides an implementation of several variants of the Self Organising Map.

Author
Fabrice Rossi <Fabrice.Rossi@apiacoa.org>
Date of publication
None
Maintainer
Fabrice Rossi <Fabrice.Rossi@apiacoa.org>
License
GPL-2
Version
0.3

View on R-Forge

Man pages

as.dist.kernelsom
Compute all the distances between prototypes in a fitted...
as.dist.relationalsom
Compute all the distances between prototypes in a fitted...
as.dist.somnum
Compute all the distances between prototypes in a fitted...
as.kernelmatrix
Turn a standard matrix into a Kernel matrix
batchkmeans
Generic K-means Clustering
batchkmeans.default
K-means Clustering for vector data
batchkmeans.kenelmatrix
Kernel K-means Clustering
batchsom
Generic Self-Organising Map fitting function
batchsom.default
Fit a Self-Organising Map to vector data
batchsom.dist
Fit a Self-Organising Map to dissimilarity data
batchsom.kernelmatrix
Fit a Kernel Self-Organising Map to some data
colorCode
Data coloring via a Self-Organising Map
componentPlane
Component Planes
distance.grid
Build a surface that represents prototype distances in a...
error.kaskilagus
Kaski and Lagus' error measure for Self-Organising Maps
error.kaskilagus.kernelsom
Kaski and Lagus' error measure for Kernel Self-Organising...
error.kaskilagus.relationalsom
Kaski and Lagus' error measure for Relational Self-Organising...
error.kaskilagus.somnum
Kaski and Lagus' error measure for Self-Organising Maps on...
error.quantisation
Quantisation error for a Self-Organising Map
error.quantisation.kernelsom
Quantisation error for a Kernel Self-Organising Map
error.quantisation.relationalsom
Quantisation error for a Relational Self-Organising Map
error.quantisation.somnum
Quantisation error for a Self-Organising Map fitted on vector...
grid2lines
Self-Organising Map grid
hitMap
Clustering Hit Map
identify.somgrid
Identify a grid cell in a grid display
mapToUnit
Map additional data to a Self-Organising Map
plot.som
Plot cell contents of a Self-Organising Map
plot.somgrid
Plot a Self-Organising Map prior structure
plot.sompdist
Plot distances between prototypes of a fitted Self-Organising...
plot.somtune
Plot SOM parameter tuning results
predict.kernelsom
Map new data to a fitted Kernel Self-Organising Map
predict.relationalsom
Map new data to a fitted Relational Self-Organising Map
predict.somnum
Map new data to a fitted Self-Organising Map for vector data
print.som
Describe a fitted Self-Organising Map
prototype.distances
Compute distances between neighbouring prototypes in a fitted...
somgrid
Create a prior structure for a self-organising map
sominit.pca
Initialise the prototypes of a SOM with PCA
sominit.pca.default
Initialise the prototypes of a SOM with PCA
sominit.pca.dist
Initialise the prototypes of a dissimilarity SOM with...
sominit.pca.kernelmatrix
Initialise the prototypes of a kernel SOM with kernel PCA
sominit.random
Initialise the prototypes of a SOM via some random sample
som.tune
Parameter tuning for Self-Organising Maps
som.tunecontrol
Control parameters for the som.tune function
umatrix
U-Matrix

Files in this package

yasomi
yasomi/R
yasomi/R/slow-relational.R
yasomi/R/tune.R
yasomi/R/graphics.R
yasomi/R/kmeans.R
yasomi/R/generic.R
yasomi/R/umatrix.R
yasomi/R/interp.R
yasomi/R/utils.R
yasomi/R/slow-versions.R
yasomi/R/som.R
yasomi/R/kernel.R
yasomi/R/quality.R
yasomi/R/annealing.R
yasomi/R/relational.R
yasomi/R/grid.R
yasomi/NAMESPACE
yasomi/tests
yasomi/tests/kmeans.R
yasomi/tests/unit
yasomi/tests/unit/runitsomgrid.R
yasomi/tests/weights.R
yasomi/tests/unit.R
yasomi/tests/kernel.R
yasomi/tests/relational.R
yasomi/inst
yasomi/inst/doc
yasomi/inst/doc/introduction.pdf
yasomi/inst/doc/introduction.Rnw
yasomi/TODO
yasomi/DESCRIPTION
yasomi/ChangeLog
yasomi/man
yasomi/man/sominit.random.Rd
yasomi/man/sominit.pca.dist.Rd
yasomi/man/batchkmeans.Rd
yasomi/man/colorCode.Rd
yasomi/man/batchsom.default.Rd
yasomi/man/error.quantisation.relationalsom.Rd
yasomi/man/mapToUnit.Rd
yasomi/man/plot.som.Rd
yasomi/man/predict.somnum.Rd
yasomi/man/grid2lines.Rd
yasomi/man/error.kaskilagus.relationalsom.Rd
yasomi/man/som.tune.Rd
yasomi/man/plot.somtune.Rd
yasomi/man/error.kaskilagus.Rd
yasomi/man/somgrid.Rd
yasomi/man/as.dist.somnum.Rd
yasomi/man/som.tunecontrol.Rd
yasomi/man/predict.relationalsom.Rd
yasomi/man/sominit.pca.kernelmatrix.Rd
yasomi/man/batchsom.kernelmatrix.Rd
yasomi/man/componentPlane.Rd
yasomi/man/error.quantisation.kernelsom.Rd
yasomi/man/sominit.pca.default.Rd
yasomi/man/as.dist.relationalsom.Rd
yasomi/man/print.som.Rd
yasomi/man/hitMap.Rd
yasomi/man/as.dist.kernelsom.Rd
yasomi/man/predict.kernelsom.Rd
yasomi/man/prototype.distances.Rd
yasomi/man/batchsom.dist.Rd
yasomi/man/identify.somgrid.Rd
yasomi/man/plot.somgrid.Rd
yasomi/man/batchkmeans.default.Rd
yasomi/man/sominit.pca.Rd
yasomi/man/umatrix.Rd
yasomi/man/error.kaskilagus.somnum.Rd
yasomi/man/plot.sompdist.Rd
yasomi/man/batchkmeans.kenelmatrix.Rd
yasomi/man/batchsom.Rd
yasomi/man/error.quantisation.somnum.Rd
yasomi/man/error.kaskilagus.kernelsom.Rd
yasomi/man/error.quantisation.Rd
yasomi/man/as.kernelmatrix.Rd
yasomi/man/distance.grid.Rd
yasomi/src
yasomi/src/relational.c
yasomi/src/som.c
yasomi/src/bmu.h
yasomi/src/bmu.c
yasomi/NEWS
yasomi/demo
yasomi/demo/som-two-dim.R
yasomi/demo/00Index
yasomi/demo/som-iris.R