- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Code demos. Use demo() to run them.

A B C D E F G H I J K L M N O P Q R S T U V W Y Z misc

compositions-package | Compositional Data Analysis |

Aar | Composition of glaciar sediments from the Aar massif (Switzerland) |

acomp | Aitchison compositions |

acomp-class | Class '"acomp"' |

acompGOF.test | Compositional Goodness of fit test |

acompGOF.test.formula | Compositional Goodness of fit test |

acompGOF.test.list | Compositional Goodness of fit test |

acompmargin | Marginal compositions in Aitchison Compositions |

acompNormalGOF.test | Compositional Goodness of fit test |

acompNormalLocation.test | Compositional Goodness of fit test |

acompTwoSampleGOF.test | Compositional Goodness of fit test |

Activity10 | Activity patterns of a statistician for 20 days |

Activity31 | Activity patterns of a statistician for 20 days |

AitchisonDistributionIntegrals | Aitchison Distribution |

alr | Additive log ratio transform |

alrInv | Additive log ratio transform |

amounts-class | Class '"amounts"' |

AnimalVegetation | Animal and vegetation measurement |

anova | Standard R functions wrapped for compatibility |

aplus | Amounts analysed in log-scale |

aplus-class | Class '"aplus"' |

apt | Additive planar transform |

aptInv | Additive planar transform |

ArcticLake | Artic lake sediment samples of different water depth |

arrows3D | arrows in 3D, based on package rgl |

arrows3D.default | arrows in 3D, based on package rgl |

as.data.frame.acomp | Convert "compositions" classes to data frames or matrices |

as.data.frame.aplus | Convert "compositions" classes to data frames or matrices |

as.data.frame.ccomp | Convert "compositions" classes to data frames or matrices |

as.data.frame.rcomp | Convert "compositions" classes to data frames or matrices |

as.data.frame.rmult | Convert "compositions" classes to data frames or matrices |

as.data.frame.rplus | Convert "compositions" classes to data frames or matrices |

as.matrix.rmult | Convert "compositions" classes to data frames or matrices |

as.missingSummary | Plot a Missing Summary |

axis3D | Drawing a 3D coordiante system to a plot, based on package rgl |

backtransform | Automatic common backtransformation for compositions |

backtransform.rmult | Automatic common backtransformation for compositions |

balance | Compute balances for a compositional dataset. |

balance.acomp | Compute balances for a compositional dataset. |

balance.aplus | Compute balances for a compositional dataset. |

balance.rcomp | Compute balances for a compositional dataset. |

balance.rplus | Compute balances for a compositional dataset. |

balance01 | Compute balances for a compositional dataset. |

balance01.acomp | Compute balances for a compositional dataset. |

balance01.rcomp | Compute balances for a compositional dataset. |

balanceBase | Compute balances for a compositional dataset. |

balanceBase.acomp | Compute balances for a compositional dataset. |

balanceBase.aplus | Compute balances for a compositional dataset. |

balanceBase.rcomp | Compute balances for a compositional dataset. |

balanceBase.rplus | Compute balances for a compositional dataset. |

barplot.acomp | Bar charts of amounts |

barplot.aplus | Bar charts of amounts |

barplot.ccomp | Bar charts of amounts |

barplot.rcomp | Bar charts of amounts |

barplot.rplus | Bar charts of amounts |

Bayesite | Permeabilities of bayesite |

BDL | The policy of treatment of missing values in the "compositions" package |

BDLvalue | The policy of treatment of missing values in the "compositions" package |

binary | Treating binary and g-adic numbers |

binary2logical | Treating binary and g-adic numbers |

biplot3D | Three-dimensional biplots, based on package rgl |

biplot3D.default | Three-dimensional biplots, based on package rgl |

biplot3D.princomp | Three-dimensional biplots, based on package rgl |

bit | Treating binary and g-adic numbers |

bit.character | Treating binary and g-adic numbers |

bit.numeric | Treating binary and g-adic numbers |

bit<- | Treating binary and g-adic numbers |

bit<-.character | Treating binary and g-adic numbers |

bit<-.numeric | Treating binary and g-adic numbers |

bitCount | Treating binary and g-adic numbers |

Blood23 | Blood samples |

Boxite | Compositions and depth of 25 specimens of boxite |

boxplot.acomp | Displaying compositions and amounts with box-plots |

boxplot.aplus | Displaying compositions and amounts with box-plots |

boxplot.rcomp | Displaying compositions and amounts with box-plots |

boxplot.rplus | Displaying compositions and amounts with box-plots |

ccomp | Count compositions |

ccomp-class | Class '"ccomp"' |

ccompMultinomialGOF.test | Compositional Goodness of fit test |

ccompPoissonGOF.test | Compositional Goodness of fit test |

cdt | Centered default transform |

cdt.acomp | Centered default transform |

cdt.aplus | Centered default transform |

cdt.ccomp | Centered default transform |

cdt.data.frame | Centered default transform |

cdt.default | Centered default transform |

cdt.factor | Centered default transform |

cdt.rcomp | Centered default transform |

cdt.rmult | Centered default transform |

cdt.rplus | Centered default transform |

cdtInv | Centered default transform |

cdtInv.acomp | Centered default transform |

cdtInv.aplus | Centered default transform |

cdtInv.ccomp | Centered default transform |

cdtInv.data.frame | Centered default transform |

cdtInv.default | Centered default transform |

cdtInv.factor | Centered default transform |

cdtInv.rcomp | Centered default transform |

cdtInv.rmult | Centered default transform |

cdtInv.rplus | Centered default transform |

cgram2vgram | vgram2lrvgram |

ClamEast | Color-size compositions of 20 clam colonies from East Bay |

ClamWest | Color-size compositions of 20 clam colonies from West Bay |

clo | Closure of a composition |

clr | Centered log ratio transform |

clr2ilr | Convert between clr and ilr, and between cpt and ipt. |

clrInv | Centered log ratio transform |

clrvar2ilr | Convert between clr and ilr, and between cpt and ipt. |

clrvar2variation | Convert between clr and ilr, and between cpt and ipt. |

ClusterFinder1 | Heuristics to find subpopulations of outliers |

ClusterFinder1.acomp | Heuristics to find subpopulations of outliers |

CoDaDendrogram | Dendrogram representation of acomp or rcomp objects |

coerce-method | Class '"acomp"' |

coerce-method | Class '"aplus"' |

coerce-method | Class '"ccomp"' |

coerce-method | Class '"rcomp"' |

coerce-method | Class '"rmult"' |

coerce-method | Class '"rplus"' |

coerce<--method | Class '"acomp"' |

coerce<--method | Class '"aplus"' |

coerce<--method | Class '"ccomp"' |

coerce<--method | Class '"rcomp"' |

coerce<--method | Class '"rmult"' |

coerce<--method | Class '"rplus"' |

coloredBiplot | A biplot providing somewhat easier access to details of the plot. |

coloredBiplot.default | A biplot providing somewhat easier access to details of the plot. |

coloredBiplot.prcomp | A biplot providing somewhat easier access to details of the plot. |

coloredBiplot.princomp | A biplot providing somewhat easier access to details of the plot. |

colorsForOutliers1 | Create a color/char palette or for groups of outliers |

colorsForOutliers2 | Create a color/char palette or for groups of outliers |

CompLinModCoReg | Compositional Linear Model of Coregionalisation |

compOKriging | Compositional Ordinary Kriging |

composition.missing | The policy of treatment of missing values in the "compositions" package |

composition.missings | The policy of treatment of missing values in the "compositions" package |

compositional-class | Class '"compositional"' |

compositions | Compositional Data Analysis |

compositions.missing | The policy of treatment of missing values in the "compositions" package |

compositions.missings | The policy of treatment of missing values in the "compositions" package |

ConfRadius | Helper to compute confidence ellipsoids |

convex.rcomp | Arithmetic operations for compositions in a real geometry |

cor | Correlations of amounts and compositions |

cor.acomp | Correlations of amounts and compositions |

cor.aplus | Correlations of amounts and compositions |

cor.default | Correlations of amounts and compositions |

cor.rcomp | Correlations of amounts and compositions |

cor.rmult | Correlations of amounts and compositions |

cor.rplus | Correlations of amounts and compositions |

cov | Variances and covariances of amounts and compositions |

cov.acomp | Variances and covariances of amounts and compositions |

cov.aplus | Variances and covariances of amounts and compositions |

cov.default | Variances and covariances of amounts and compositions |

cov.rcomp | Variances and covariances of amounts and compositions |

cov.rmult | Variances and covariances of amounts and compositions |

cov.rplus | Variances and covariances of amounts and compositions |

Coxite | Compositions, depths and porosities of 25 specimens of coxite |

cpt | Centered planar transform |

cptInv | Centered planar transform |

dAitchison | Aitchison Distribution |

Data01 | Compositions of 25 specimens of hongite |

Data02 | Compositions of 25 specimens of kongite |

Data03 | Compositions and depth of 25 specimens of boxite |

Data04 | Compositions, depths and porosities of 25 specimens of coxite |

Data05 | Artic lake sediment samples of different water depth |

Data06 | AFM compositions of 23 aphyric Skye lavas |

Data07 | Proportions of supervisor's statements assigned to different categories |

DATA08 | Household Expenditures |

Data09 | Steroid metabolite patterns in adults and children |

DATA10 | Activity patterns of a statistician for 20 days |

Data11 | White-cell composition of 30 blood samples by two different methods |

Data12 | Yatquat fruit evaluation |

Data13 | Firework mixtures |

Data14 | Color-size compositions of 20 clam colonies from East Bay |

Data15 | Color-size compositions of 20 clam colonies from West Bay |

Data16 | Serum Protein compositions of blood samples |

Data17 | Diagnostic probabilities |

DATA18 | Compositions and total pebble counts of 92 glacial tills |

Data19 | Honk Kong Pogo-Jumps Championship |

Data20 | Proportions of sand, silt and clay in sediments specimens |

Data21 | Permeabilities of bayesite |

Data22 | Shifts of machine operators |

Data23 | Blood samples |

Data24 | Measurement of skulls |

Data25 | Animal and vegetation measurement |

DATA31 | Activity patterns of a statistician for 20 days |

dDirichlet | Dirichlet distribution |

DiagnosticProb | Diagnostic probabilities |

dist | Distances in variouse approaches |

dist.default | Distances in variouse approaches |

dlnorm.rplus | The multivariate lognormal distribution |

dnorm.acomp | Normal distributions on special spaces |

dnorm.aplus | Normal distributions on special spaces |

dnorm.rmult | Normal distributions on special spaces |

ellipses | Draw ellipses |

ellipses.acomp | Draw ellipses |

ellipses.aplus | Draw ellipses |

ellipses.rcomp | Draw ellipses |

ellipses.rmult | Draw ellipses |

ellipses.rplus | Draw ellipses |

endmemberCoordinates | Recast amounts as mixtures of end-members |

endmemberCoordinates.acomp | Recast amounts as mixtures of end-members |

endmemberCoordinates.aplus | Recast amounts as mixtures of end-members |

endmemberCoordinates.default | Recast amounts as mixtures of end-members |

endmemberCoordinates.rplus | Recast amounts as mixtures of end-members |

endmemberCoordinatesInv | Recast amounts as mixtures of end-members |

endmemberCoordinatesInv.acomp | Recast amounts as mixtures of end-members |

endmemberCoordinatesInv.aplus | Recast amounts as mixtures of end-members |

endmemberCoordinatesInv.rcomp | Recast amounts as mixtures of end-members |

endmemberCoordinatesInv.rmult | Recast amounts as mixtures of end-members |

endmemberCoordinatesInv.rplus | Recast amounts as mixtures of end-members |

Firework | Firework mixtures |

fit.lmc | Compositional variogram model fitting |

fit.lmc.logratioVariogram | Compositional variogram model fitting |

fitDirichlet | Fitting a Dirichlet distribution |

fitSameMeanDifferentVarianceModel | Fit Same Mean Different Variance Model |

gadic | Treating binary and g-adic numbers |

Gauss.test | Classical Gauss Test |

geometricmean | The geometric mean |

geometricmeanCol | The geometric mean |

geometricmeanRow | The geometric mean |

getDetectionlimit | Gets the detection limit stored in the data set |

getStickyClassOption | Subsetting of compositions |

Glacial | Compositions and total pebble counts of 92 glacial tills |

groupparts | Group amounts of parts |

groupparts.acomp | Group amounts of parts |

groupparts.aplus | Group amounts of parts |

groupparts.ccomp | Group amounts of parts |

groupparts.rcomp | Group amounts of parts |

groupparts.rplus | Group amounts of parts |

gsi.acompUniformityGOF.test | Compositional Goodness of fit test |

gsi.geometricmean | The geometric mean |

gsi.geometricmean.Col | The geometric mean |

gsi.geometricmean.Row | The geometric mean |

gsi.geometricmeanCol | The geometric mean |

gsi.geometricmeanRow | The geometric mean |

gsi.getV | Automatic common backtransformation for compositions |

gsi.orig | Automatic common backtransformation for compositions |

gsi.orSum | Treating binary and g-adic numbers |

gsi.pStore | Compute distributions of empirical Mahalanobis distances based on simulations |

has.missings | The policy of treatment of missing values in the "compositions" package |

has.missings.default | The policy of treatment of missing values in the "compositions" package |

has.missings.rmult | The policy of treatment of missing values in the "compositions" package |

HEMF | Household Expenditures |

Hongite | Compositions of 25 specimens of hongite |

HouseholdExp | Household Expenditures |

Hydrochem | Hydrochemical composition data set of Llobregat river basin water (NE Spain) |

idt | Isometric default transform |

idt.acomp | Isometric default transform |

idt.aplus | Isometric default transform |

idt.ccomp | Isometric default transform |

idt.data.frame | Isometric default transform |

idt.default | Isometric default transform |

idt.factor | Isometric default transform |

idt.rcomp | Isometric default transform |

idt.rmult | Isometric default transform |

idt.rplus | Isometric default transform |

idtInv | Isometric default transform |

idtInv.acomp | Isometric default transform |

idtInv.aplus | Isometric default transform |

idtInv.ccomp | Isometric default transform |

idtInv.data.frame | Isometric default transform |

idtInv.default | Isometric default transform |

idtInv.factor | Isometric default transform |

idtInv.rcomp | Isometric default transform |

idtInv.rmult | Isometric default transform |

idtInv.rplus | Isometric default transform |

iit | Isometric identity transform |

iitInv | Isometric identity transform |

ilr | Isometric log ratio transform |

ilr2clr | Convert between clr and ilr, and between cpt and ipt. |

ilrBase | The canonical basis in the clr plane used for ilr and ipt transforms. |

ilrBaseList | The canonical basis in the clr plane used for ilr and ipt transforms. |

ilrInv | Isometric log ratio transform |

ilrvar2clr | Convert between clr and ilr, and between cpt and ipt. |

ilt | Isometric log transform |

iltInv | Isometric log transform |

ipt | Isometric planar transform |

iptInv | Isometric planar transform |

is.acomp | Check for compositional data type |

is.aplus | Check for compositional data type |

is.BDL | The policy of treatment of missing values in the "compositions" package |

is.ccomp | Check for compositional data type |

is.clrvar | Convert between clr and ilr, and between cpt and ipt. |

is.ilrvar | Convert between clr and ilr, and between cpt and ipt. |

is.MAR | The policy of treatment of missing values in the "compositions" package |

is.MNAR | The policy of treatment of missing values in the "compositions" package |

is.MNV | The policy of treatment of missing values in the "compositions" package |

is.NMV | The policy of treatment of missing values in the "compositions" package |

is.rcomp | Check for compositional data type |

is.rmult | Check for compositional data type |

is.rplus | Check for compositional data type |

is.SZ | The policy of treatment of missing values in the "compositions" package |

is.variation | Variation matrices of amounts and compositions |

is.WMNAR | The policy of treatment of missing values in the "compositions" package |

is.WZERO | The policy of treatment of missing values in the "compositions" package |

IsMahalanobisOutlier | Checking for outliers |

isoPortionLines | Isoportion- and Isoproportion-lines |

isoPortionLines.acomp | Isoportion- and Isoproportion-lines |

isoPortionLines.rcomp | Isoportion- and Isoproportion-lines |

isoProportionLines | Isoportion- and Isoproportion-lines |

isoProportionLines.acomp | Isoportion- and Isoproportion-lines |

isoProportionLines.rcomp | Isoportion- and Isoproportion-lines |

jura259 | The jura dataset |

juraset | The jura dataset |

Kappa | Uncentered log transform |

kdeDirichlet | Density estimation on the simplex with Dirichlet kernel |

kingTetrahedron | Ploting composition into rotable tetrahedron |

Kongite | Compositions of 25 specimens of kongite |

lines.acomp | Draws connected lines from point to point. |

lines.aplus | Draws connected lines from point to point. |

lines.rcomp | Draws connected lines from point to point. |

lines.rmult | Draws connected lines from point to point. |

lines.rplus | Draws connected lines from point to point. |

logratioVariogram | Empirical variograms for compositions |

logratioVariogram.acomp | Empirical variograms for compositions |

MahalanobisDist | Compute Mahalanobis distances based von robust Estimations |

MahalanobisDist.acomp | Compute Mahalanobis distances based von robust Estimations |

MahalanobisDist.aplus | Compute Mahalanobis distances based von robust Estimations |

MahalanobisDist.rcomp | Compute Mahalanobis distances based von robust Estimations |

MahalanobisDist.rmult | Compute Mahalanobis distances based von robust Estimations |

MahalanobisDist.rplus | Compute Mahalanobis distances based von robust Estimations |

MAR | The policy of treatment of missing values in the "compositions" package |

MARvalue | The policy of treatment of missing values in the "compositions" package |

maxBit | Treating binary and g-adic numbers |

maxBit.character | Treating binary and g-adic numbers |

maxBit.numeric | Treating binary and g-adic numbers |

mcor | Metric summary statistics of real, amount or compositional data |

mcor.default | Metric summary statistics of real, amount or compositional data |

mcov | Metric summary statistics of real, amount or compositional data |

mcov.default | Metric summary statistics of real, amount or compositional data |

mean.acomp | Mean amounts and mean compositions |

mean.aplus | Mean amounts and mean compositions |

mean.ccomp | Mean amounts and mean compositions |

mean.col | The arithmetic mean of rows or columns |

mean.rcomp | Mean amounts and mean compositions |

mean.rmult | Mean amounts and mean compositions |

mean.row | The arithmetic mean of rows or columns |

mean.rplus | Mean amounts and mean compositions |

meanCol | The arithmetic mean of rows or columns |

meanRow | The arithmetic mean of rows or columns |

Metabolites | Steroid metabolite patterns in adults and children |

missingProjector | Returns a projector the the observed space in case of missings. |

missingProjector.acomp | Returns a projector the the observed space in case of missings. |

missingProjector.aplus | Returns a projector the the observed space in case of missings. |

missingProjector.rcomp | Returns a projector the the observed space in case of missings. |

missingProjector.rmult | Returns a projector the the observed space in case of missings. |

missingProjector.rplus | Returns a projector the the observed space in case of missings. |

missings | The policy of treatment of missing values in the "compositions" package |

missingsInCompositions | The policy of treatment of missing values in the "compositions" package |

missingSummary | Classify and summarize missing values in a dataset |

missingType | Classify and summarize missing values in a dataset |

mix.2acomp | Transformations from 'mixtures' to 'compositions' classes |

mix.2aplus | Transformations from 'mixtures' to 'compositions' classes |

mix.2rcomp | Transformations from 'mixtures' to 'compositions' classes |

mix.2rmult | Transformations from 'mixtures' to 'compositions' classes |

mix.2rplus | Transformations from 'mixtures' to 'compositions' classes |

mix.Read | Reads a data file in a mixR format |

MNAR | The policy of treatment of missing values in the "compositions" package |

MNARvalue | The policy of treatment of missing values in the "compositions" package |

msd | Metric summary statistics of real, amount or compositional data |

msd.default | Metric summary statistics of real, amount or compositional data |

mul.rplus | vectorial arithmetic for data sets with rplus class |

mvar | Metric summary statistics of real, amount or compositional data |

mvar.default | Metric summary statistics of real, amount or compositional data |

names.acomp | The names of the parts |

names.aplus | The names of the parts |

names.ccomp | The names of the parts |

names.rcomp | The names of the parts |

names.rmult | The names of the parts |

names.rplus | The names of the parts |

names<-.acomp | The names of the parts |

names<-.aplus | The names of the parts |

names<-.ccomp | The names of the parts |

names<-.rcomp | The names of the parts |

names<-.rmult | The names of the parts |

names<-.rplus | The names of the parts |

NMV | The policy of treatment of missing values in the "compositions" package |

noreplot | Modify parameters of compositional plots. |

norm | Vector space norm |

norm.acomp | Vector space norm |

norm.aplus | Vector space norm |

norm.default | Vector space norm |

norm.matrix | Vector space norm |

norm.rcomp | Vector space norm |

norm.rmult | Vector space norm |

norm.rplus | Vector space norm |

normalize | Normalize vectors to norm 1 |

normalize.default | Normalize vectors to norm 1 |

observeWithAdditiveError | Artifical simulation of various kinds of missings/polluted data |

observeWithDetectionLimit | Artifical simulation of various kinds of missings/polluted data |

observeWithDetectionlimit | Artifical simulation of various kinds of missings/polluted data |

oneOrDataset | Treating single compositions as one-row datasets |

OutlierClassifier1 | Detect and classify compositional outliers. |

OutlierClassifier1.acomp | Detect and classify compositional outliers. |

outlierplot | Plot various graphics to analyse outliers. |

outlierplot.acomp | Plot various graphics to analyse outliers. |

outliersInCompositions | Analysing outliers in compositions. |

pairs.acomp | Pairs plot method for compositions |

pairs.rcomp | Pairs plot method for compositions |

pairwisePlot | Creates a paneled plot like pairs for two different datasets. |

pairwisePlot.default | Creates a paneled plot like pairs for two different datasets. |

parameterPosdefClrMat | Unique parametrisations for matrices. |

parameterPosdefMat | Unique parametrisations for matrices. |

parameterRank1ClrMat | Unique parametrisations for matrices. |

parameterRank1Mat | Unique parametrisations for matrices. |

parametricPosdefClrMat | Unique parametrisations for matrices. |

parametricPosdefMat | Unique parametrisations for matrices. |

parametricRank1ClrMat | Unique parametrisations for matrices. |

parametricRank1Mat | Unique parametrisations for matrices. |

pchForOutliers1 | Create a color/char palette or for groups of outliers |

pEmpiricalMahalanobis | Compute distributions of empirical Mahalanobis distances based on simulations |

perturbe | Perturbation of compositions |

perturbe.aplus | vectorial arithmetic for data sets with aplus class |

pHotellingsTsq | Hotellings T square distribution |

plot.acomp | Ternary diagrams |

plot.aplus | Displaying amounts in scatterplots |

plot.ccomp | Ternary diagrams |

plot.logratioVariogram | Empirical variograms for compositions |

plot.missingSummary | Plot a Missing Summary |

plot.princomp.acomp | Principal component analysis for Aitchison compositions |

plot.princomp.aplus | Principal component analysis for amounts in log geometry |

plot.princomp.rcomp | Principal component analysis for real compositions |

plot.princomp.rplus | Principal component analysis for real amounts |

plot.rcomp | Ternary diagrams |

plot.relativeLoadings.princomp.acomp | Loadings of relations of two amounts |

plot.relativeLoadings.princomp.aplus | Loadings of relations of two amounts |

plot.relativeLoadings.princomp.rcomp | Loadings of relations of two amounts |

plot.relativeLoadings.princomp.rplus | Loadings of relations of two amounts |

plot.rmult | Displaying amounts in scatterplots |

plot.rplus | Displaying amounts in scatterplots |

plot3D | plot in 3D based on rgl |

plot3D.acomp | 3D-plot of compositional data |

plot3D.aplus | 3D-plot of positive data |

plot3D.default | plot in 3D based on rgl |

plot3D.rcomp | 3D-plot of compositional data |

plot3D.rmult | plot in 3D based on rgl |

plot3D.rplus | plot in 3D based on rgl |

pMaxMahalanobis | Compute distributions of empirical Mahalanobis distances based on simulations |

PogoJump | Honk Kong Pogo-Jumps Championship |

PoissonGOF.test | Compositional Goodness of fit test |

power.acomp | Power transform in the simplex |

power.aplus | vectorial arithmetic for data sets with aplus class |

powerofpsdmatrix | power transform of a matrix |

pPortionMahalanobis | Compute distributions of empirical Mahalanobis distances based on simulations |

pQuantileMahalanobis | Compute distributions of empirical Mahalanobis distances based on simulations |

predict.princomp.acomp | Principal component analysis for Aitchison compositions |

predict.princomp.aplus | Principal component analysis for amounts in log geometry |

predict.princomp.rcomp | Principal component analysis for real compositions |

predict.princomp.rplus | Principal component analysis for real amounts |

princomp.acomp | Principal component analysis for Aitchison compositions |

princomp.aplus | Principal component analysis for amounts in log geometry |

princomp.rcomp | Principal component analysis for real compositions |

princomp.rmult | Principal component analysis for real data |

princomp.rplus | Principal component analysis for real amounts |

print.acomp | Printing compositional data. |

print.aplus | Printing compositional data. |

print.princomp.acomp | Principal component analysis for Aitchison compositions |

print.princomp.aplus | Principal component analysis for amounts in log geometry |

print.princomp.rcomp | Principal component analysis for real compositions |

print.princomp.rplus | Principal component analysis for real amounts |

print.rcomp | Printing compositional data. |

print.relativeLoadings.princomp.acomp | Loadings of relations of two amounts |

print.relativeLoadings.princomp.aplus | Loadings of relations of two amounts |

print.relativeLoadings.princomp.rcomp | Loadings of relations of two amounts |

print.relativeLoadings.princomp.rplus | Loadings of relations of two amounts |

print.rmult | Simple treatment of real vectors |

print.rplus | Printing compositional data. |

pwlr | Pairwise log ratio transform |

pwlrInv | Pairwise log ratio transform |

pwlrPlot | Plots of pairwise logratio against a covariable. |

pwlrplot | Plots of pairwise logratio against a covariable. |

qEmpiricalMahalanobis | Compute distributions of empirical Mahalanobis distances based on simulations |

qHotellingsTsq | Hotellings T square distribution |

qMaxMahalanobis | Compute distributions of empirical Mahalanobis distances based on simulations |

qPortionMahalanobis | Compute distributions of empirical Mahalanobis distances based on simulations |

qqnorm.acomp | Normal quantile plots for compositions and amounts |

qqnorm.aplus | Normal quantile plots for compositions and amounts |

qqnorm.rcomp | Normal quantile plots for compositions and amounts |

qqnorm.rplus | Normal quantile plots for compositions and amounts |

R2 | R square |

R2.default | R square |

R2.lm | R square |

rAitchison | Aitchison Distribution |

rcomp | Compositions as elements of the simplex embedded in the D-dimensional real space |

rcomp-class | Class '"rcomp"' |

rcompmargin | Marginal compositions in real geometry |

rDirichlet | Dirichlet distribution |

rDirichlet.acomp | Dirichlet distribution |

rDirichlet.rcomp | Dirichlet distribution |

read.geoEAS | Reads a data file in a geoeas format |

read.geoeas | Reads a data file in a geoeas format |

relativeLoadings | Loadings of relations of two amounts |

relativeLoadings.princomp.acomp | Loadings of relations of two amounts |

relativeLoadings.princomp.aplus | Loadings of relations of two amounts |

relativeLoadings.princomp.rcomp | Loadings of relations of two amounts |

relativeLoadings.princomp.rplus | Loadings of relations of two amounts |

rEmpiricalMahalanobis | Compute distributions of empirical Mahalanobis distances based on simulations |

replot | Modify parameters of compositional plots. |

replotable | Modify parameters of compositional plots. |

rlnorm.rplus | The multivariate lognormal distribution |

rMaxMahalanobis | Compute distributions of empirical Mahalanobis distances based on simulations |

rmult | Simple treatment of real vectors |

rmult-class | Class '"rmult"' |

rmultinom.ccomp | Simulate count compositions without overdispersion |

rnorm.acomp | Normal distributions on special spaces |

rnorm.aplus | Normal distributions on special spaces |

rnorm.ccomp | Normal distributions on special spaces |

rnorm.rcomp | Normal distributions on special spaces |

rnorm.rmult | Normal distributions on special spaces |

rnorm.rplus | Normal distributions on special spaces |

robust | Handling robustness issues and outliers in compositions. |

robustnessInCompositions | Handling robustness issues and outliers in compositions. |

rplus | Amounts i.e. positive numbers analysed as objects of the real vector space |

rplus-class | Class '"rplus"' |

rpois.ccomp | Simulate count compositions without overdispersion |

rPortionMahalanobis | Compute distributions of empirical Mahalanobis distances based on simulations |

Rsquare | R square |

runif.acomp | The uniform distribution on the simplex |

runif.rcomp | The uniform distribution on the simplex |

sa.dirichlet | Simulated amount datasets |

sa.dirichlet.dil | Simulated amount datasets |

sa.dirichlet.mix | Simulated amount datasets |

sa.dirichlet5 | Simulated amount datasets |

sa.dirichlet5.dil | Simulated amount datasets |

sa.dirichlet5.mix | Simulated amount datasets |

sa.groups | Simulated amount datasets |

sa.groups.area | Simulated amount datasets |

sa.groups.dil | Simulated amount datasets |

sa.groups.mix | Simulated amount datasets |

sa.groups5 | Simulated amount datasets |

sa.groups5.area | Simulated amount datasets |

sa.groups5.dil | Simulated amount datasets |

sa.groups5.mix | Simulated amount datasets |

sa.lognormals | Simulated amount datasets |

sa.lognormals.dil | Simulated amount datasets |

sa.lognormals.mix | Simulated amount datasets |

sa.lognormals5 | Simulated amount datasets |

sa.lognormals5.dil | Simulated amount datasets |

sa.lognormals5.mix | Simulated amount datasets |

sa.missings | Simulated amount datasets |

sa.missings5 | Simulated amount datasets |

sa.outliers1 | Simulated amount datasets |

sa.outliers2 | Simulated amount datasets |

sa.outliers3 | Simulated amount datasets |

sa.outliers4 | Simulated amount datasets |

sa.outliers5 | Simulated amount datasets |

sa.outliers6 | Simulated amount datasets |

sa.tnormals | Simulated amount datasets |

sa.tnormals.dil | Simulated amount datasets |

sa.tnormals.mix | Simulated amount datasets |

sa.tnormals5 | Simulated amount datasets |

sa.tnormals5.dil | Simulated amount datasets |

sa.tnormals5.mix | Simulated amount datasets |

sa.uniform | Simulated amount datasets |

sa.uniform.dil | Simulated amount datasets |

sa.uniform.mix | Simulated amount datasets |

sa.uniform5 | Simulated amount datasets |

sa.uniform5.dil | Simulated amount datasets |

sa.uniform5.mix | Simulated amount datasets |

scalar | Parallel scalar products |

scalar.default | Parallel scalar products |

scale | Normalizing datasets by centering and scaling |

scale.acomp | Normalizing datasets by centering and scaling |

scale.aplus | Normalizing datasets by centering and scaling |

scale.default | Normalizing datasets by centering and scaling |

scale.rcomp | Normalizing datasets by centering and scaling |

scale.rmult | Normalizing datasets by centering and scaling |

scale.rplus | Normalizing datasets by centering and scaling |

Sediments | Proportions of sand, silt and clay in sediments specimens |

segments | Draws straight lines from point to point. |

segments.acomp | Draws straight lines from point to point. |

segments.aplus | Draws straight lines from point to point. |

segments.default | Draws straight lines from point to point. |

segments.rcomp | Draws straight lines from point to point. |

segments.rmult | Draws straight lines from point to point. |

segments.rplus | Draws straight lines from point to point. |

SerumProtein | Serum Protein compositions of blood samples |

setStickyClassOption | Subsetting of compositions |

ShiftOperators | Shifts of machine operators |

simpleMissingSubplot | Ternary diagrams |

SimulatedAmounts | Simulated amount datasets |

simulateMissings | Artifical simulation of various kinds of missings/polluted data |

Skulls | Measurement of skulls |

SkyeAFM | AFM compositions of 23 aphyric Skye lavas |

split.acomp | Splitting datasets in groups given by factors |

split.aplus | Splitting datasets in groups given by factors |

split.ccomp | Splitting datasets in groups given by factors |

split.rcomp | Splitting datasets in groups given by factors |

split.rmult | Splitting datasets in groups given by factors |

split.rplus | Splitting datasets in groups given by factors |

straight | Draws straight lines. |

straight.acomp | Draws straight lines. |

straight.aplus | Draws straight lines. |

straight.rcomp | Draws straight lines. |

straight.rmult | Draws straight lines. |

straight.rplus | Draws straight lines. |

summary.acomp | Summarizing a compositional dataset in terms of ratios |

summary.aplus | Summaries of amounts |

summary.rcomp | Summary of compositions in real geometry |

summary.rmult | Summaries of amounts |

summary.rplus | Summaries of amounts |

sumMissingProjector | Compute the global projector to the observed subspace. |

sumMissingProjector.acomp | Compute the global projector to the observed subspace. |

sumMissingProjector.aplus | Compute the global projector to the observed subspace. |

sumMissingProjector.rcomp | Compute the global projector to the observed subspace. |

sumMissingProjector.rmult | Compute the global projector to the observed subspace. |

sumMissingProjector.rplus | Compute the global projector to the observed subspace. |

Supervisor | Proportions of supervisor's statements assigned to different categories |

SZ | The policy of treatment of missing values in the "compositions" package |

SZvalue | The policy of treatment of missing values in the "compositions" package |

ternaryAxis | Axis for ternary diagrams |

totals | Total sum of amounts |

totals.acomp | Total sum of amounts |

totals.aplus | Total sum of amounts |

totals.ccomp | Total sum of amounts |

totals.rcomp | Total sum of amounts |

totals.rplus | Total sum of amounts |

tryDebugger | Empirical variograms for compositions |

uciptInv | Isometric planar transform |

ult | Uncentered log transform |

ultInv | Uncentered log transform |

unbinary | Treating binary and g-adic numbers |

var | Variances and covariances of amounts and compositions |

var.acomp | Variances and covariances of amounts and compositions |

var.aplus | Variances and covariances of amounts and compositions |

var.default | Variances and covariances of amounts and compositions |

var.lm | Residual variance of a model |

var.mlm | Residual variance of a model |

var.rcomp | Variances and covariances of amounts and compositions |

var.rmult | Variances and covariances of amounts and compositions |

var.rplus | Variances and covariances of amounts and compositions |

variation | Variation matrices of amounts and compositions |

variation.acomp | Variation matrices of amounts and compositions |

variation.aplus | Variation matrices of amounts and compositions |

variation.default | Variation matrices of amounts and compositions |

variation.rcomp | Variation matrices of amounts and compositions |

variation.rmult | Variation matrices of amounts and compositions |

variation.rplus | Variation matrices of amounts and compositions |

variation2clrvar | Convert between clr and ilr, and between cpt and ipt. |

vcovAcomp | Variance covariance matrix of parameters in compositional regression |

vgmFit | Compositional variogram model fitting |

vgmFit2lrv | Compositional variogram model fitting |

vgmGetParameters | Compositional variogram model fitting |

vgmGof | Compositional variogram model fitting |

vgmSetParameters | Compositional variogram model fitting |

vgram.cardsin | Variogram functions |

vgram.exp | Variogram functions |

vgram.gauss | Variogram functions |

vgram.lin | Variogram functions |

vgram.nugget | Variogram functions |

vgram.pow | Variogram functions |

vgram.sph | Variogram functions |

vgram2lrvgram | vgram2lrvgram |

vp.boxplot | Displaying compositions and amounts with box-plots |

vp.diffdensityplot | Pairs plot method for compositions |

vp.kde2dplot | Pairs plot method for compositions |

vp.logboxplot | Displaying compositions and amounts with box-plots |

vp.lrboxplot | Pairs plot method for compositions |

vp.lrdensityplot | Pairs plot method for compositions |

vp.qqnorm | Normal quantile plots for compositions and amounts |

whichBits | Treating binary and g-adic numbers |

WhiteCells | White-cell composition of 30 blood samples by two different methods |

Yatquat | Yatquat fruit evaluation |

zeroreplace | Zero-replacement routine |

$.acomp | Subsetting of compositions |

$.aplus | Subsetting of compositions |

$.ccomp | Subsetting of compositions |

$.rcomp | Subsetting of compositions |

$.rmult | Subsetting of compositions |

$.rplus | Subsetting of compositions |

%*% | inner product for matrices and vectors |

%*%.acomp | inner product for datasets with a vector space structure |

%*%.aplus | inner product for datasets with a vector space structure |

%*%.default | inner product for matrices and vectors |

%*%.rmult | inner product for datasets with vector scale |

*.acomp | Power transform in the simplex |

*.aplus | vectorial arithmetic for data sets with aplus class |

*.rcomp | Arithmetic operations for compositions in a real geometry |

*.rmult | vectorial arithmetic for datasets in a classical vector scale |

*.rplus | vectorial arithmetic for data sets with rplus class |

+.acomp | Perturbation of compositions |

+.aplus | vectorial arithmetic for data sets with aplus class |

+.rcomp | Arithmetic operations for compositions in a real geometry |

+.rmult | vectorial arithmetic for datasets in a classical vector scale |

+.rplus | vectorial arithmetic for data sets with rplus class |

-.acomp | Perturbation of compositions |

-.aplus | vectorial arithmetic for data sets with aplus class |

-.rcomp | Arithmetic operations for compositions in a real geometry |

-.rmult | vectorial arithmetic for datasets in a classical vector scale |

-.rplus | vectorial arithmetic for data sets with rplus class |

/.acomp | Power transform in the simplex |

/.aplus | vectorial arithmetic for data sets with aplus class |

/.rcomp | Arithmetic operations for compositions in a real geometry |

/.rmult | vectorial arithmetic for datasets in a classical vector scale |

/.rplus | vectorial arithmetic for data sets with rplus class |

[.acomp | Subsetting of compositions |

[.aplus | Subsetting of compositions |

[.ccomp | Subsetting of compositions |

[.rcomp | Subsetting of compositions |

[.rmult | Subsetting of compositions |

[.rplus | Subsetting of compositions |