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dimRed (version 0.2.5)

A Framework for Dimensionality Reduction

Description

A collection of dimensionality reduction techniques from R packages and a common interface for calling the methods.

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Version

Install

install.packages('dimRed')

Monthly Downloads

1,373

Version

0.2.5

License

GPL-3 | file LICENSE

Maintainer

Guido Kraemer

Last Published

March 10th, 2022

Functions in dimRed (0.2.5)

DiffusionMaps-class

Diffusion Maps
DRR-class

Dimensionality Reduction via Regression
Isomap-class

Isomap embedding
KamadaKawai-class

Graph Embedding via the Kamada Kawai Algorithm
HLLE-class

Hessian Locally Linear Embedding
FruchtermanReingold-class

Fruchterman Reingold Graph Layout
FastICA-class

Independent Component Analysis
MDS-class

Metric Dimensional Scaling
LaplacianEigenmaps-class

Laplacian Eigenmaps
DrL-class

Distributed Recursive Graph Layout
PCA_L1-class

Principal Component Analysis with L1 error.
Q_NX,dimRedResult-method

Method Q_NX
AUC_lnK_R_NX,dimRedResult-method

Method AUC_lnK_R_NX
dimRedMethodList

dimRedMethodList
dimRedMethod-class

Class "dimRedMethod"
AutoEncoder-class

AutoEncoder
R_NX,dimRedResult-method

Method R_NX
Q_global,dimRedResult-method

Method Q_global
UMAP-class

Umap embedding
Q_local,dimRedResult-method

Method Q_local
as.data.frame

Converts to data.frame
LCMC,dimRedResult-method

Method LCMC
LLE-class

Locally Linear Embedding
getOrgData

Method getOrgData
getNDim

Method getNDim
embed

dispatches the different methods for dimensionality reduction
kPCA-class

Kernel PCA
getPars

Method getPars
getOtherData

Method getOtherData
maximize_correlation,dimRedResult-method

Maximize Correlation with the Axes
getData

Method getData
mixColorRamps

Mixing color ramps
getDimRedData

Method getDimRedData
as.dimRedData

Converts to dimRedData
makeKNNgraph

makeKNNgraph
tSNE-class

t-Distributed Stochastic Neighborhood Embedding
reconstruction_rmse,dimRedResult-method

Method reconstruction_rmse
mean_R_NX,dimRedResult-method

Method mean_R_NX
getMeta

Method getMeta
getRotationMatrix

getRotationMatrix
nMDS-class

Non-Metric Dimensional Scaling
total_correlation,dimRedResult-method

Method total_correlation
installSuggests

getSuggests
dimRedData-class

Class "dimRedData"
reconstruction_error,dimRedResult-method

Method reconstruction_error
quality,dimRedResult-method

Quality Criteria for dimensionality reduction.
dimRed-package

The dimRed package
cophenetic_correlation,dimRedResult-method

Method cophenetic_correlation
dataSets

Example Data Sets for dimensionality reduction
NNMF-class

Non-Negative Matrix Factorization
PCA-class

Principal Component Analysis
dimRedResult-class

Class "dimRedResult"
ndims

Method ndims
distance_correlation,dimRedResult-method

Method distance_correlation
plot

Plotting of dimRed* objects
print

Method print
plot_R_NX

plot_R_NX