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dimRed (version 0.2.0)

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

0.2.0

License

GPL-3 | file LICENSE

Issues

8

Pull Requests

0

Stars

73

Forks

15

Maintainer

Guido Kraemer

Last Published

November 8th, 2018

Functions in dimRed (0.2.0)

DrL-class

Distributed Recursive Graph Layout
getRotationMatrix

getRotationMatrix
DRR-class

Dimensionality Reduction via Regression
KamadaKawai-class

Graph Embedding via the Kamada Kawai Algorithm
DiffusionMaps-class

Diffusion Maps
total_correlation,dimRedResult-method

Method total_correlation
installSuggests

getSuggests
LaplacianEigenmaps-class

Laplacian Eigenmaps
dimRedMethod-class

Class "dimRedMethod"
dimRedMethodList

dimRedMethodList
MDS-class

Metric Dimensional Scaling
Q_NX,dimRedResult-method

Method Q_NX
getDimRedData

Method getDimRedData
LLE-class

Locally Linear Embedding
as.data.frame

Converts to data.frame
AutoEncoder-class

AutoEncoder
NNMF-class

Non-Negative Matrix Factorization
Q_global,dimRedResult-method

Method Q_global
R_NX,dimRedResult-method

Method R_NX
Q_local,dimRedResult-method

Method Q_local
getMeta

Method getMeta
cophenetic_correlation,dimRedResult-method

Method cophenetic_correlation
as.dimRedData

Converts to dimRedData
UMAP-class

Umap embedding
dataSets

Example Data Sets for dimensionality reduction
getNDim

Method getNDim
getOrgData

Method getOrgData
dimRedResult-class

Class "dimRedResult"
PCA-class

Principal Component Analysis
getOtherData

Method getOtherData
dimRed-package

The dimRed package
maximize_correlation,dimRedResult-method

Maximize Correlation with the Axes
ndims

Method ndims
distance_correlation,dimRedResult-method

Method distance_correlation
plot

Plotting of dimRed* objects
mean_R_NX,dimRedResult-method

Method mean_R_NX
quality,dimRedResult-method

Quality Criteria for dimensionality reduction.
dimRedData-class

Class "dimRedData"
reconstruction_error,dimRedResult-method

Method reconstruction_error
embed

dispatches the different methods for dimensionality reduction
plot_R_NX

plot_R_NX
mixColorRamps

Mixing color ramps
getData

Method getData
kPCA-class

Kernel PCA
print

Method print
nMDS-class

Non-Metric Dimensional Scaling
getPars

Method getPars
reconstruction_rmse,dimRedResult-method

Method reconstruction_rmse
makeKNNgraph

makeKNNgraph
tSNE-class

t-Distributed Stochastic Neighborhood Embedding
Isomap-class

Isomap embedding
AUC_lnK_R_NX,dimRedResult-method

Method AUC_lnK_R_NX
LCMC,dimRedResult-method

Method LCMC
PCA_L1-class

Principal Component Analysis with L1 error.
FastICA-class

Independent Component Analysis
FruchtermanReingold-class

Fruchterman Reingold Graph Layout
HLLE-class

Hessian Locally Linear Embedding