mvdalab: Multivariate Data Analysis Laboratory

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An open-source project implementation of latent variable methods and multivariate modeling tools. The focus is on exploratory analyses using dimensionality reduction methods including low dimensional embedding, classical multivariate statistical tools , and tools for enhanced interpretation of machine learning methods (i.e. intelligible models to provide important information for end-users). Target domains include extension to dedicated applications e.g. for manufacturing process modeling, spectroscopic analyses, and data mining.

Author
Nelson Lee Afanador, Thanh Tran, and Lionel Blanchet
Date of publication
2016-07-09 10:45:38
Maintainer
Nelson Lee Afanador <nelson.afanador@mvdalab.com>
License
GPL-3
Version
1.1

View on CRAN

Man pages

acfplot
Plot of Auto-correlation Funcion
ap.plot
Actual versus Predicted Plot and Residuals versus Predicted
bca.cis
Bias-corrected and Accelerated Confidence Intervals
bidiagpls.fit
Bidiag2 PLS
BiPlot
Generates a biplot from the output of an 'mvdareg' and...
boot.plots
Plots of the Output of a Bootstrap Simulation for an...
coefficients
Extract Summary Information Pertaining to the Coefficients...
coefficients.boots
BCa Summaries for the coefficient of an mvdareg object
coefficientsplot2D
2-Dimensionsl Graphical Summary Information Pertaining to the...
coef.mvdareg
Extract Information From a plsFit Model
coefsplot
Graphical Summary Information Pertaining to the Regression...
College
Data for College Level Examination Program and the College...
contr.niets
Cell Means Contrast Matrix
ellipse.mvdalab
Ellipses, Data Ellipses, and Confidence Ellipses
imputeBasic
Naive imputation of missing values.
imputeEM
Expectation Maximization (EM) for imputation of missing...
imputeQs
Quartile Naive Imputation of Missing Values
imputeRough
Naive Imputation of Missing Values for Dummy Variable Model...
introNAs
Introduce NA's into a Dataframe
jk.after.boot
Jackknife After Bootstrap
loadings
Summary Information Pertaining to the Bootstrapped Loadings
loadings.boots
BCa Summaries for the loadings of an mvdareg object
loadingsplot
Graphical Summary Information Pertaining to the Loadings
loadingsplot2D
2-Dimensionsl Graphical Summary Information Pertaining to the...
mewma
Generates a Hotelling's T2 Graph of the Multivariate...
model.matrix.mvdalab
'model.matrix' creates a design (or model) matrix.
MVcis
Calculate Hotelling's T2 Confidence Intervals
MVComp
Traditional Multivariate Mean Vector Comparison
mvdaboot
Bootstrapping routine for 'mvdareg' objects
mvdalab-package-title
Multivariate Data Analysis Laboratory (mvdalab)
mvdaloo
Leave-one-out routine for 'mvdareg' objects
mvrnorm.svd
Simulate from a Multivariate Normal, Poisson, Exponential, or...
my.dummy.df
Create a Design Matrix with the Desired Constrasts
no.intercept
Delete Intercept from Model Matrix
pcaFit
Principal Component Analysis
pca.nipals
PCA with the NIPALS algorithm
PE
Percent Explained Variation of X
Penta
Penta data set
perc.cis
Percentile Bootstrap Confidence Intervals
plot.cp
Plotting Function for Score Contributions.
plot.mvcomp
Plot of Multivariate Mean Vector Comparison
plot.mvdareg
General plotting function for 'mvdareg' and 'mvdapaca'...
plot.plusminus
2D Graph of the PCA scores associated with a plusminusFit
plot.R2s
Plot of R2
plot.smc
Plotting function for Significant Multivariate Correlation
plot.sr
Plotting function for Selectivity Ratio.
plot.vip
Plotting function for Variable Importance in the Projection
plsFit
Partial Least Squares Regression
plusMinusDat
plusMinusDat data set
plusminus.fit
PlusMinus (Mas-o-Menos)
plusminusFit
Plus-Minus (Mas-o-Menos) Classifier
plusminus.loo
Leave-one-out routine for 'plusminus' objects
predict.mvdareg
Model Predictions From a plsFit Model
print.mvdalab
Print Methods for mvdalab Objects
print.plusminus
Print Methods for plusminus Objects
proCrustes
Comparison of n-point Configurations vis Procrustes Analysis
R2s
Cross-validated R2, R2 for X, and R2 for Y for PLS models
ScoreContrib
Generates a score contribution plot
scoresplot
2D Graph of the scores
SeqimputeEM
Sequential Expectation Maximization (EM) for imputation of...
smc
Significant Multivariate Correlation
smc.acfTest
Test of the Residual Significant Multivariate Correlation...
sr
Selectivity Ratio
T2
Generates a Hotelling's T2 Graph
vip
Variable Importance in the Projection
weight.boots
BCa Summaries for the weights of an mvdareg object
weights
Extract Summary Information Pertaining to the Bootstrapped...
weightsplot
Extract Graphical Summary Information Pertaining to the...
weightsplot2D
Extract a 2-Dimensional Graphical Summary Information...
Xresids
Generates a Graph of the X-residuals
XresidualContrib
Generates the squared prediction error contributions and...
y.loadings
Extract Summary Information Pertaining to the y-loadings
y.loadings.boots
Extract Summary Information Pertaining to the y-loadings

Files in this package

mvdalab
mvdalab/NAMESPACE
mvdalab/NEWS.md
mvdalab/data
mvdalab/data/Penta.rda
mvdalab/data/plusMinusDat.rda
mvdalab/data/College.rda
mvdalab/R
mvdalab/R/acfplot.R
mvdalab/R/coef.mvdareg.R
mvdalab/R/plot.mvcomp.R
mvdalab/R/model.matrix.mvdareg.R
mvdalab/R/imputeBasic.R
mvdalab/R/XresidualContrib.R
mvdalab/R/loadings.mvdareg.R
mvdalab/R/loadingsplot.R
mvdalab/R/vip.R
mvdalab/R/Xresids.R
mvdalab/R/print.npca.R
mvdalab/R/weightsplot.R
mvdalab/R/plot.plusminus.R
mvdalab/R/T2.R
mvdalab/R/weights.mvdareg.R
mvdalab/R/coefficients.mvdareg.R
mvdalab/R/MVcis.R
mvdalab/R/print.empca.R
mvdalab/R/loadingsplot2D.R
mvdalab/R/print.seqem.R
mvdalab/R/print.proC.R
mvdalab/R/summary.plusminus.R
mvdalab/R/plot.R2s.R
mvdalab/R/my.dummy.df.R
mvdalab/R/print.mvdareg.R
mvdalab/R/print.mvdapca.R
mvdalab/R/imputeRough.R
mvdalab/R/bidiagpls.fit.R
mvdalab/R/coefficients.boots.R
mvdalab/R/smc.R
mvdalab/R/mewma.R
mvdalab/R/no.intercept.R
mvdalab/R/proCrustes.R
mvdalab/R/R2s.R
mvdalab/R/pcaFit.R
mvdalab/R/sr.R
mvdalab/R/pca.nipals.R
mvdalab/R/plusminus.loo.R
mvdalab/R/smc.acfTest.R
mvdalab/R/weight.boots.R
mvdalab/R/summary.mvdareg.R
mvdalab/R/mvdaboot.R
mvdalab/R/imputeQs.R
mvdalab/R/introNAs.R
mvdalab/R/SeqimputeEM.R
mvdalab/R/boot.plots.R
mvdalab/R/ap.plot.R
mvdalab/R/weightsplot2D.R
mvdalab/R/BiPlot.R
mvdalab/R/y.loadings.R
mvdalab/R/jk.after.boot.R
mvdalab/R/PE.R
mvdalab/R/MVComp.R
mvdalab/R/imputeEM.R
mvdalab/R/predict.mvdareg.R
mvdalab/R/plot.mvdapca.R
mvdalab/R/mvrnorm.svd.R
mvdalab/R/plot.mvdareg.R
mvdalab/R/bca.cis.R
mvdalab/R/perc.cis.R
mvdalab/R/plusminusFit.R
mvdalab/R/loadings.boots.R
mvdalab/R/coefsplot.R
mvdalab/R/scoresplot.R
mvdalab/R/contr.niets.R
mvdalab/R/plot.cp.R
mvdalab/R/ScoreContrib.R
mvdalab/R/mvdalab.R
mvdalab/R/plsFit.R
mvdalab/R/print.plusminus.R
mvdalab/R/y.loadings.boots.R
mvdalab/R/mvrnormBase.svd.R
mvdalab/R/ellipse.mvdalab.R
mvdalab/R/plusminus.fit.R
mvdalab/R/plot.vip.R
mvdalab/R/coefficientsplot2D.R
mvdalab/R/mvdaloo.R
mvdalab/README.md
mvdalab/MD5
mvdalab/DESCRIPTION
mvdalab/man
mvdalab/man/loadingsplot.Rd
mvdalab/man/MVcis.Rd
mvdalab/man/imputeBasic.Rd
mvdalab/man/MVComp.Rd
mvdalab/man/proCrustes.Rd
mvdalab/man/my.dummy.df.Rd
mvdalab/man/plot.mvcomp.Rd
mvdalab/man/coefficients.Rd
mvdalab/man/SeqimputeEM.Rd
mvdalab/man/vip.Rd
mvdalab/man/coef.mvdareg.Rd
mvdalab/man/bidiagpls.fit.Rd
mvdalab/man/print.mvdalab.Rd
mvdalab/man/introNAs.Rd
mvdalab/man/plot.cp.Rd
mvdalab/man/weightsplot.Rd
mvdalab/man/BiPlot.Rd
mvdalab/man/imputeRough.Rd
mvdalab/man/mvdaloo.Rd
mvdalab/man/XresidualContrib.Rd
mvdalab/man/predict.mvdareg.Rd
mvdalab/man/y.loadings.Rd
mvdalab/man/plot.vip.Rd
mvdalab/man/mvdaboot.Rd
mvdalab/man/no.intercept.Rd
mvdalab/man/sr.Rd
mvdalab/man/jk.after.boot.Rd
mvdalab/man/print.plusminus.Rd
mvdalab/man/ScoreContrib.Rd
mvdalab/man/plot.R2s.Rd
mvdalab/man/coefsplot.Rd
mvdalab/man/plot.sr.Rd
mvdalab/man/contr.niets.Rd
mvdalab/man/plot.mvdareg.Rd
mvdalab/man/T2.Rd
mvdalab/man/smc.Rd
mvdalab/man/College.Rd
mvdalab/man/coefficientsplot2D.Rd
mvdalab/man/PE.Rd
mvdalab/man/mvdalab-package-title.Rd
mvdalab/man/plusMinusDat.Rd
mvdalab/man/weight.boots.Rd
mvdalab/man/plot.smc.Rd
mvdalab/man/loadings.boots.Rd
mvdalab/man/loadings.Rd
mvdalab/man/scoresplot.Rd
mvdalab/man/model.matrix.mvdalab.Rd
mvdalab/man/mvrnorm.svd.Rd
mvdalab/man/imputeEM.Rd
mvdalab/man/ap.plot.Rd
mvdalab/man/boot.plots.Rd
mvdalab/man/acfplot.Rd
mvdalab/man/Xresids.Rd
mvdalab/man/plot.plusminus.Rd
mvdalab/man/weights.Rd
mvdalab/man/plusminus.loo.Rd
mvdalab/man/plusminusFit.Rd
mvdalab/man/smc.acfTest.Rd
mvdalab/man/imputeQs.Rd
mvdalab/man/Penta.Rd
mvdalab/man/R2s.Rd
mvdalab/man/plusminus.fit.Rd
mvdalab/man/plsFit.Rd
mvdalab/man/perc.cis.Rd
mvdalab/man/weightsplot2D.Rd
mvdalab/man/y.loadings.boots.Rd
mvdalab/man/bca.cis.Rd
mvdalab/man/mewma.Rd
mvdalab/man/loadingsplot2D.Rd
mvdalab/man/pca.nipals.Rd
mvdalab/man/coefficients.boots.Rd
mvdalab/man/pcaFit.Rd
mvdalab/man/ellipse.mvdalab.Rd