robCompositions: Robust Estimation for Compositional Data

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Methods for analysis of compositional data including robust methods, imputation, methods to replace rounded zeros, (robust) outlier detection for compositional data, (robust) principal component analysis for compositional data, (robust) factor analysis for compositional data, (robust) discriminant analysis for compositional data (Fisher rule), robust regression with compositional predictors and (robust) Anderson-Darling normality tests for compositional data as well as popular log-ratio transformations (addLR, cenLR, isomLR, and their inverse transformations). In addition, visualisation and diagnostic tools are implemented as well as high and low-level plot functions for the ternary diagram.

Author
Matthias Templ, Karel Hron, Peter Filzmoser
Date of publication
2016-08-22 12:00:07
Maintainer
Matthias Templ <templ@tuwien.ac.at>
License
GPL-2
Version
2.0.2

View on CRAN

Man pages

addLR
Additive log-ratio transformation
addLRinv
Additive logistic transformaton
aDist
Aitchison distance
adjust
Adjusting for original scale
adtest
Anderson-Darling Normality Tests
adtestWrapper
Wrapper for Anderson-Darling tests
ageCatWorld
Child, middle and eldery population
alcohol
alcohol
alcoholreg
alcoholreg
arcticLake
Arctic lake sediment data
balZav
New average symmetric coordinates
biplot.factanal
Biplot method
biplot.pcaCoDa
Biplot method
bootnComp
Bootstrap to find optimal number of components
cancer
Hospital discharges on cancer and distribution of age
cenLR
Centred log-ratio transformation
cenLRinv
Inverse centred log-ratio transformation
clustCoDa
Cluster analysis for compositional data
clustCoDa_qmode
Q-mode cluster analysis for compositional parts
coffee
coffee data set
compareMahal
Compares Mahalanobis distances from two approaches
constSum
Constant sum
corCoDa
Correlations for compositional data
daCoDa
Linear and quadratic discriminant analysis for compositional...
daFisher
Discriminant analysis by Fisher Rule.
economy
Economic indicators
election
Election data
expenditures
Synthetic household expenditures toy data set
expendituresEU
Mean consumption expenditures data.
gemas
Gemas geochemical data set
gm
geometric mean
haplogroups
Haplogroups data.
impAll
Replacement of rounded zeros and missing values.
impCoda
Imputation of missing values in compositional data
impKNNa
Imputation of missing values in compositional data using knn...
impRZalr
alr EM-based Imputation for Rounded Zeros
impRZilr
EM-based replacement of rounded zeros in compositional data
imputeBDLs
EM-based replacement of rounded zeros in compositional data
isomLR
Isometric log-ratio transformation
laborForce
Labour force by status in employment
lifeExpGdp
Life expectancy and GDP (2008) for EU-countries
lmCoDaX
Classical and robust regression of non-compositional response...
machineOperators
machine operators
mcad
Metabolomics mcad data set
missPatterns
missing or zero pattern structure.
mortality
Mortality and life expectancy in the EU
orthbasis
Orthonormal basis
outCoDa
Outlier detection for compositional data
payments
Special payments
pcaCoDa
Robust principal component analysis for compositional data
pfa
Factor analysis for compositional data
phd
PhD Students in the EU
plot.imp
Plot method for objects of class imp
plot.pcaCoDa
Plot method
print.imp
Print method for objects of class imp
production
Production
robCompositions-package
Robust Estimation for Compositional Data.
skyeLavas
Aphyric skye lavas data
summary.imp
Summary method for objects of class imp
ternaryDiag
Ternary diagram
ternaryDiagAbline
Adds a line to a ternary diagram.
ternaryDiagEllipse
Adds tolerance ellipses to a ternary diagram.
ternaryDiagPoints
Add points or lines to a given ternary diagram.
trondelagC
Regional geochemical survey of soil C in Norway
trondelagO
Regional geochemical survey of soil O in Norway
variation
Robust and classical variation matrix
zeroOut
Detection of outliers of zero-inflated data

Files in this package

robCompositions
robCompositions/inst
robCompositions/inst/CITATION
robCompositions/inst/doc
robCompositions/inst/doc/imputation.Rnw
robCompositions/inst/doc/robCompositions-overview.pdf
robCompositions/inst/doc/robCompositions-overview.Rnw
robCompositions/inst/doc/imputation.pdf
robCompositions/inst/doc/imputation.R
robCompositions/tests
robCompositions/tests/imp_test.R
robCompositions/tests/rz.R
robCompositions/src
robCompositions/src/robCompositions.c
robCompositions/NAMESPACE
robCompositions/NEWS
robCompositions/data
robCompositions/data/mcad.rda
robCompositions/data/production.rda
robCompositions/data/economy.rda
robCompositions/data/alcohol.rda
robCompositions/data/gemas.rda
robCompositions/data/machineOperators.rda
robCompositions/data/payments.rda
robCompositions/data/coffee.rda
robCompositions/data/haplogroups.rda
robCompositions/data/trondelagO.rda
robCompositions/data/trondelagC.rda
robCompositions/data/phd.rda
robCompositions/data/expendituresEU.rda
robCompositions/data/alcoholreg.rda
robCompositions/data/expenditures.rda
robCompositions/data/cancer.rda
robCompositions/data/skyeLavas.rda
robCompositions/data/election.rda
robCompositions/data/laborForce.rda
robCompositions/data/mortality.rda
robCompositions/data/ageCatWorld.rda
robCompositions/data/arcticLake.rda
robCompositions/data/lifeExpGdp.rda
robCompositions/R
robCompositions/R/dataSets.R
robCompositions/R/robilrregression.R
robCompositions/R/gm.R
robCompositions/R/compareMahal.R
robCompositions/R/utils.R
robCompositions/R/impRZalr.R
robCompositions/R/ternaryDiagEllipse.R
robCompositions/R/zeroOut.R
robCompositions/R/adjust.R
robCompositions/R/addLRinv.R
robCompositions/R/factanal.fit.principal1.R
robCompositions/R/alphablend.R
robCompositions/R/balZav.R
robCompositions/R/biplot.factanal.R
robCompositions/R/impKNNa.R
robCompositions/R/outCoDa.R
robCompositions/R/daFisher.R
robCompositions/R/impCoda.R
robCompositions/R/ternaryDiagAbline.R
robCompositions/R/impAll.R
robCompositions/R/plot.imp.R
robCompositions/R/ternaryDiagLines.R
robCompositions/R/constSum.R
robCompositions/R/aDist.R
robCompositions/R/clustCoDa.R
robCompositions/R/pcaCoDa.R
robCompositions/R/ilrregression.R
robCompositions/R/adtestWrapper.R
robCompositions/R/summary.imp.R
robCompositions/R/cenLR.R
robCompositions/R/cenLRinv.R
robCompositions/R/missPatterns.R
robCompositions/R/isomLR.R
robCompositions/R/biplot.pcaCoDa.R
robCompositions/R/corCoDa.R
robCompositions/R/imputeBDLs.R
robCompositions/R/addLR.R
robCompositions/R/robCompositions-package.R
robCompositions/R/ternaryDiag.R
robCompositions/R/daCoDa.R
robCompositions/R/print.imp.R
robCompositions/R/variation.R
robCompositions/R/impPCA.R
robCompositions/R/impRZilr.R
robCompositions/R/ternaryDiagPoints.R
robCompositions/R/adtest.R
robCompositions/R/clustCoDa_qmode.R
robCompositions/R/lmCoDaX.R
robCompositions/R/zzz.R
robCompositions/R/pfa.R
robCompositions/R/orthbasis.R
robCompositions/R/plot.pcaCoDa.R
robCompositions/vignettes
robCompositions/vignettes/imputation-concordance.tex
robCompositions/vignettes/ilr.pdf
robCompositions/vignettes/imputation-plot4.pdf
robCompositions/vignettes/refPCS.bib
robCompositions/vignettes/logo.pdf
robCompositions/vignettes/pcaOrig.pdf
robCompositions/vignettes/imputation.Rnw
robCompositions/vignettes/plainnat.bst
robCompositions/vignettes/boxplot.pdf
robCompositions/vignettes/imputation-plot1.pdf
robCompositions/vignettes/refPCSn.bib
robCompositions/vignettes/robCompositions-overview.Rnw
robCompositions/vignettes/ternary.pdf
robCompositions/vignettes/natbib.sty
robCompositions/vignettes/ref.bib
robCompositions/vignettes/plot-acomp.pdf
robCompositions/vignettes/pca1.pdf
robCompositions/vignettes/framed.sty
robCompositions/vignettes/CoDaWork.sty
robCompositions/vignettes/subfigure.sty
robCompositions/README.md
robCompositions/MD5
robCompositions/build
robCompositions/build/vignette.rds
robCompositions/DESCRIPTION
robCompositions/man
robCompositions/man/print.imp.Rd
robCompositions/man/impAll.Rd
robCompositions/man/outCoDa.Rd
robCompositions/man/lmCoDaX.Rd
robCompositions/man/impRZalr.Rd
robCompositions/man/trondelagO.Rd
robCompositions/man/constSum.Rd
robCompositions/man/pcaCoDa.Rd
robCompositions/man/robCompositions-package.Rd
robCompositions/man/clustCoDa.Rd
robCompositions/man/skyeLavas.Rd
robCompositions/man/phd.Rd
robCompositions/man/compareMahal.Rd
robCompositions/man/addLRinv.Rd
robCompositions/man/daCoDa.Rd
robCompositions/man/biplot.pcaCoDa.Rd
robCompositions/man/plot.pcaCoDa.Rd
robCompositions/man/laborForce.Rd
robCompositions/man/expendituresEU.Rd
robCompositions/man/cancer.Rd
robCompositions/man/adtestWrapper.Rd
robCompositions/man/cenLR.Rd
robCompositions/man/addLR.Rd
robCompositions/man/expenditures.Rd
robCompositions/man/mcad.Rd
robCompositions/man/adtest.Rd
robCompositions/man/machineOperators.Rd
robCompositions/man/gemas.Rd
robCompositions/man/impRZilr.Rd
robCompositions/man/adjust.Rd
robCompositions/man/ternaryDiagEllipse.Rd
robCompositions/man/aDist.Rd
robCompositions/man/ternaryDiag.Rd
robCompositions/man/missPatterns.Rd
robCompositions/man/isomLR.Rd
robCompositions/man/daFisher.Rd
robCompositions/man/orthbasis.Rd
robCompositions/man/cenLRinv.Rd
robCompositions/man/trondelagC.Rd
robCompositions/man/payments.Rd
robCompositions/man/zeroOut.Rd
robCompositions/man/plot.imp.Rd
robCompositions/man/haplogroups.Rd
robCompositions/man/economy.Rd
robCompositions/man/variation.Rd
robCompositions/man/clustCoDa_qmode.Rd
robCompositions/man/corCoDa.Rd
robCompositions/man/mortality.Rd
robCompositions/man/impCoda.Rd
robCompositions/man/gm.Rd
robCompositions/man/alcoholreg.Rd
robCompositions/man/pfa.Rd
robCompositions/man/summary.imp.Rd
robCompositions/man/coffee.Rd
robCompositions/man/arcticLake.Rd
robCompositions/man/ternaryDiagAbline.Rd
robCompositions/man/production.Rd
robCompositions/man/biplot.factanal.Rd
robCompositions/man/election.Rd
robCompositions/man/imputeBDLs.Rd
robCompositions/man/balZav.Rd
robCompositions/man/bootnComp.Rd
robCompositions/man/lifeExpGdp.Rd
robCompositions/man/impKNNa.Rd
robCompositions/man/ternaryDiagPoints.Rd
robCompositions/man/alcohol.Rd
robCompositions/man/ageCatWorld.Rd