ade4: Analysis of Ecological Data : Exploratory and Euclidean Methods in Environmental Sciences
Version 1.7-2

Multivariate data analysis and graphical display.

Browse man pages Browse package API and functions Browse package files

AuthorStéphane Dray <stephane.dray@univ-lyon1.fr>, Anne-Béatrice Dufour <anne-beatrice.dufour@univ-lyon1.fr>, and Jean Thioulouse <jean.thioulouse@univ-lyon1.fr>, with contributions from Thibaut Jombart, Sandrine Pavoine, Jean R. Lobry, Sébastien Ollier, and Aurélie Siberchicot. Based on earlier work by Daniel Chessel.
Date of publication2015-08-27 13:01:05
MaintainerAurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>
LicenseGPL (>= 2)
Version1.7-2
URL http://pbil.univ-lyon1.fr/ADE-4 Mailing list: http://listes.univ-lyon1.fr/wws/info/adelist
Package repositoryView on R-Forge
InstallationInstall the latest version of this package by entering the following in R:
install.packages("ade4", repos="http://R-Forge.R-project.org")

Man pages

abouheif.eg: Phylogenies and quantitative traits from Abouheif
acacia: Spatial pattern analysis in plant communities
add.scatter: Add graphics to an existing plot
ade4-deprecated: Deprecated functions in ade4
ade4-internal: Internal ade4 functions
ade4.package: The ade4 package
ade4toR: Format Change Utility
adegraphicsLoaded: Utility function to test if the package adegraphics is loaded
aminoacyl: Codon usage
amova: Analysis of molecular variance
apis108: Allelic frequencies in ten honeybees populations at eight...
apqe: Apportionment of Quadratic Entropy
aravo: Distribution of Alpine plants in Aravo (Valloire, France)
ardeche: Fauna Table with double (row and column) partitioning
area.plot: Graphical Display of Areas
arrival: Arrivals at an intensive care unit
as.taxo: Taxonomy
atlas: Small Ecological Dataset
atya: Genetic variability of Cacadors
avijons: Bird species distribution
avimedi: Fauna Table for Constrained Ordinations
aviurba: Ecological Tables Triplet
bacteria: Genomes of 43 Bacteria
banque: Table of Factors
baran95: African Estuary Fishes
bca.rlq: Between-Class RLQ analysis
between: Between-Class Analysis
betweencoinertia: Between-class coinertia analysis
bf88: Cubic Ecological Data
bicenter.wt: Double Weighted Centring
bordeaux: Wine Tasting
bsetal97: Ecological and Biological Traits
buech: Buech basin
butterfly: Genetics-Ecology-Environment Triple
bwca.dpcoa: Between- and within-class double principal coordinate...
cailliez: Transformation to make Euclidean a distance matrix
capitales: Road Distances
carni19: Phylogeny and quantative trait of carnivora
carni70: Phylogeny and quantitative traits of carnivora
carniherbi49: Taxonomy, phylogenies and quantitative traits of carnivora...
casitas: Enzymatic polymorphism in Mus musculus
cca: Canonical Correspondence Analysis
chatcat: Qualitative Weighted Variables
chats: Pair of Variables
chazeb: Charolais-Zebus
chevaine: Enzymatic polymorphism in Leuciscus cephalus
chickenk: Veterinary epidemiological study to assess the risk factors...
clementines: Fruit Production
cnc2003: Frequenting movie theaters in France in 2003
coinertia: Coinertia Analysis
coleo: Table of Fuzzy Biological Traits
combine.4thcorner: Functions to combine and adjust the outputs 3-table methods
corkdist: Tests of randomization between distances applied to 'kdist'...
corvus: Corvus morphology
costatis: STATIS and Co-Inertia : Analysis of a series of paired...
costatis.randtest: Monte-Carlo test on a Costatis analysis (in C).
deug: Exam marks for some students
disc: Rao's dissimilarity coefficient
discrimin: Linear Discriminant Analysis (descriptive statistic)
discrimin.coa: Discriminant Correspondence Analysis
dist.binary: Computation of Distance Matrices for Binary Data
dist.dudi: Computation of the Distance Matrix from a Statistical Triplet
dist.genet: Genetic distances from gene frequencies
dist.ktab: Mixed-variables coefficient of distance
dist.neig: Computation of the Distance Matrix associated to a...
dist.prop: Computation of Distance Matrices of Percentage Data
dist.quant: Computation of Distance Matrices on Quantitative Variables
divc: Rao's diversity coefficient also called quadratic entropy
divcmax: Maximal value of Rao's diversity coefficient also called...
dotchart.phylog: Representation of many quantitative variables in front of a...
dotcircle: Representation of n values on a circle
doubs: Pair of Ecological Tables
dpcoa: Double principal coordinate analysis
dudi: Duality Diagram
dudi.acm: Multiple Correspondence Analysis
dudi.coa: Correspondence Analysis
dudi.dec: Decentred Correspondence Analysis
dudi.fca: Fuzzy Correspondence Analysis and Fuzzy Principal Components...
dudi.hillsmith: Ordination of Tables mixing quantitative variables and...
dudi.mix: Ordination of Tables mixing quantitative variables and...
dudi.nsc: Non symmetric correspondence analysis
dudi.pca: Principal Component Analysis
dudi.pco: Principal Coordinates Analysis
dunedata: Dune Meadow Data
ecg: Electrocardiogram data
ecomor: Ecomorphological Convergence
EH: Amount of Evolutionary History
elec88: Electoral Data
escopage: K-tables of wine-tasting
euro123: Triangular Data
fission: Fission pattern and heritable morphological traits
foucart: K-tables Correspondence Analysis with the same rows and the...
fourthcorner: Functions to compute the fourth-corner statistic
friday87: Faunistic K-tables
fruits: Pair of Tables
fuzzygenet: Reading a table of genetic data (diploid individuals)
gearymoran: Moran's I and Geary'c randomization tests for spatial and...
genet: A class of data: tables of populations and alleles
ggtortoises: Microsatellites of Galapagos tortoises populations
granulo: Granulometric Curves
gridrowcol: Complete regular grid analysis
hdpg: Genetic Variation In Human Populations
housetasks: Contingency Table
humDNAm: human mitochondrial DNA restriction data
ichtyo: Point sampling of fish community
inertia.dudi: Statistics of inertia in a one-table analysis
irishdata: Geary's Irish Data
is.euclid: Is a Distance Matrix Euclidean ?
julliot: Seed dispersal
jv73: K-tables Multi-Regions
kcponds: Ponds in a nature reserve
kdist: the class of objects 'kdist' (K distance matrices)
kdist2ktab: Transformation of K distance matrices (object 'kdist') into K...
kdisteuclid: a way to obtain Euclidean distance matrices
kplot: Generic Function for Multiple Graphs in a K-tables Analysis
kplot.foucart: Multiple Graphs for the Foucart's Correspondence Analysis
kplot.mcoa: Multiple Graphs for a Multiple Co-inertia Analysis
kplot.mfa: Multiple Graphs for a Multiple Factorial Analysis
kplot.pta: Multiple Graphs for a Partial Triadic Analysis
kplot.sepan: Multiple Graphs for Separated Analyses in a K-tables
kplot.statis: Multiple Graphs of a STATIS Analysis
krandtest: Class of the Permutation Tests (in C).
ktab: the class of objects 'ktab' (K-tables)
ktab.data.frame: Creation of K-tables from a data frame
ktab.list.df: Creating a K-tables from a list of data frames.
ktab.list.dudi: Creation of a K-tables from a list of duality diagrams
ktab.match2ktabs: STATIS and Co-Inertia : Analysis of a series of paired...
ktab.within: Process to go from a Within Analysis to a K-tables
lascaux: Genetic/Environment and types of variables
lingoes: Transformation of a Distance Matrix for becoming Euclidean
lizards: Phylogeny and quantitative traits of lizards
macaca: Landmarks
macon: Wine Tasting
macroloire: Assemblages of Macroinvertebrates in the Loire River (France)
mafragh: Phyto-Ecological Survey
mantel.randtest: Mantel test (correlation between two distance matrices (in...
mantel.rtest: Mantel test (correlation between two distance matrices (in...
maples: Phylogeny and quantitative traits of flowers
mariages: Correspondence Analysis Table
mbpcaiv: Multiblock principal component analysis with instrumental...
mbpls: Multiblock partial least squares
mcoa: Multiple CO-inertia Analysis
mdpcoa: Multiple Double Principal Coordinate Analysis
meau: Ecological Data : sites-variables, sites-species, where and...
meaudret: Ecological Data : sites-variables, sites-species, where and...
mfa: Multiple Factorial Analysis
microsatt: Genetic Relationships between cattle breeds with...
mjrochet: Phylogeny and quantitative traits of teleos fishes
mld: Multi Level Decomposition of unidimensional data
mollusc: Faunistic Communities and Sampling Experiment
monde84: Global State of the World in 1984
morphosport: Athletes' Morphology
mstree: Minimal Spanning Tree
multiblock: Display and summarize multiblock objects
multispati: Multivariate spatial analysis
multispati.randtest: Multivariate spatial autocorrelation test (in C)
multispati.rtest: Multivariate spatial autocorrelation test
neig: Neighbourhood Graphs
newick2phylog: Create phylogeny
newick.eg: Phylogenetic trees in Newick format
niche: Method to Analyse a pair of tables : Environmental and...
nipals: Non-linear Iterative Partial Least Squares (NIPALS) algorithm
njplot: Phylogeny and trait of bacteria
olympic: Olympic Decathlon
optimEH: Nee and May's optimizing process
oribatid: Oribatid mite
originality: Originality of a species
orisaved: Maximal or minimal amount of originality saved under optimal...
orthobasis: Orthonormal basis for orthonormal transform
orthogram: Orthonormal decomposition of variance
ours: A table of Qualitative Variables
palm: Phylogenetic and quantitative traits of amazonian palm trees
pap: Taxonomy and quantitative traits of carnivora
pcaiv: Principal component analysis with respect to instrumental...
pcaivortho: Principal Component Analysis with respect to orthogonal...
pcoscaled: Simplified Analysis in Principal Coordinates
pcw: Distribution of of tropical trees along the Panama canal
perthi02: Contingency Table with a partition in Molecular Biology
phylog: Phylogeny
PI2newick: Import data files from Phylogenetic Independance Package
piosphere: Plant traits response to grazing
plot.between: Between-Class Analysis
plot.phylog: Plot phylogenies
plot.within: Within-Class Analysis
presid2002: Results of the French presidential elections of 2002
procella: Phylogeny and quantitative traits of birds
procuste: Simple Procruste Rotation between two sets of points
procuste.randtest: Monte-Carlo Test on the sum of the singular values of a...
procuste.rtest: Monte-Carlo Test on the sum of the singular values of a...
pta: Partial Triadic Analysis of a K-tables
quasieuclid: Transformation of a distance matrice to a Euclidean one
randboot: Bootstrap simulations
randboot.multiblock: Bootstraped simulations for multiblock methods
randEH: Nee and May's random process
randtest: Class of the Permutation Tests (in C).
randtest.amova: Permutation tests on an analysis of molecular variance (in...
randtest.between: Monte-Carlo Test on the between-groups inertia percentage (in...
randtest.coinertia: Monte-Carlo test on a Co-inertia analysis (in C).
randtest.discrimin: Monte-Carlo Test on a Discriminant Analysis (in C).
randtest.pcaiv: Monte-Carlo Test on the percentage of explained (i.e....
randxval: Two-fold cross-validation
rankrock: Ordination Table
reconst: Reconstitution of Data from a Duality Diagram
rhizobium: Genetic structure of two nitrogen fixing bacteria influenced...
rhone: Physico-Chemistry Data
rlq: RLQ analysis
rpjdl: Avifauna and Vegetation
rtest: Class of the Permutation Tests (in R).
rtest.between: Monte-Carlo Test on the between-groups inertia percentage (in...
rtest.discrimin: Monte-Carlo Test on a Discriminant Analysis (in R).
RVdist.randtest: Tests of randomization on the correlation between two...
RV.rtest: Monte-Carlo Test on the sum of eigenvalues of a co-inertia...
santacatalina: Indirect Ordination
sarcelles: Array of Recapture of Rings
s.arrow: Plot of the factorial maps for the projection of a vector...
scalewt: Compute or scale data using (weighted) means, variances and...
scatter: Graphical representation of the outputs of a multivariate...
scatter.acm: Plot of the factorial maps in a Multiple Correspondence...
scatter.coa: Plot of the factorial maps for a correspondence analysis
scatter.dudi: Plot of the Factorial Maps
scatter.fca: Plot of the factorial maps for a fuzzy correspondence...
scatterutil: Graphical utility functions
s.chull: Plot of the factorial maps with polygons of contour by level...
s.class: Plot of factorial maps with representation of point classes
sco.boxplot: Representation of the link between a variable and a set of...
sco.class: 1D plot of a numeric score and a factor with labels
sco.distri: Representation by mean- standard deviation of a set of weight...
sco.gauss: Relationships between one score and qualitative variables
sco.label: 1D plot of a numeric score with labels
sco.match: 1D plot of a pair of numeric scores with labels
sco.quant: Graph to Analyse the Relation between a Score and...
s.corcircle: Plot of the factorial maps of a correlation circle
score: Graphs for One Dimension
score.acm: Graphs to study one factor in a Multiple Correspondence...
score.coa: Reciprocal scaling after a correspondence analysis
score.mix: Graphs to Analyse a factor in a Mixed Analysis
score.pca: Graphs to Analyse a factor in PCA
s.distri: Plot of a frequency distribution
seconde: Students and Subjects
sepan: Separated Analyses in a K-tables
s.hist: Display of a scatterplot and its two marginal histograms
s.image: Graph of a variable using image and contour
s.kde2d: Scatter Plot with Kernel Density Estimate
skulls: Morphometric Evolution
s.label: Scatter Plot
s.logo: Representation of an object in a graph by a picture
s.match: Plot of Paired Coordinates
s.match.class: Scatterplot of two sets of coordinates and a partionning into...
s.multinom: Graph of frequency profiles (useful for instance in genetic)
statico: STATIS and Co-Inertia : Analysis of a series of paired...
statico.krandtest: Monte-Carlo test on a Statico analysis (in C).
statis: STATIS, a method for analysing K-tables
steppe: Transect in the Vegetation
s.traject: Trajectory Plot
supcol: Projections of Supplementary Columns
suprow: Projections of Supplementary Rows
s.value: Representation of a value in a graph
symbols.phylog: Representation of a quantitative variable in front of a...
syndicats: Two Questions asked on a Sample of 1000 Respondents
t3012: Average temperatures of 30 French cities
table.cont: Plot of Contingency Tables
table.dist: Graph Display for Distance Matrices
table.paint: Plot of the arrays by grey levels
table.phylog: Plot arrays in front of a phylogenetic tree
table.value: Plot of the Arrays
tarentaise: Mountain Avifauna
taxo.eg: Examples of taxonomy
testdim: Function to perform a test of dimensionality
testdim.multiblock: Selection of the number of dimension by two-fold...
tintoodiel: Tinto and Odiel estuary geochemistry
tithonia: Phylogeny and quantitative traits of flowers
tortues: Morphological Study of the Painted Turtle
toxicity: Homogeneous Table
triangle.class: Triangular Representation and Groups of points
triangle.plot: Triangular Plotting
trichometeo: Pair of Ecological Data
ungulates: Phylogeny and quantitative traits of ungulates.
uniquewt.df: Elimination of Duplicated Rows in a Array
variance.phylog: The phylogenetic ANOVA
vegtf: Vegetation in Trois-Fontaines
veuvage: Example for Centring in PCA
wca.rlq: Within-Class RLQ analysis
westafrica: Freshwater fish zoogeography in west Africa
within: Within-Class Analysis
withincoinertia: Within-class coinertia analysis
withinpca: Normed within principal component analysis
witwit.coa: Internal Correspondence Analysis
woangers: Plant assemblages in woodlands of the conurbation of Angers...
worksurv: French Worker Survey (1970)
yanomama: Distance Matrices
zealand: Road distances in New-Zealand

Functions

EH Man page
PI2newick Man page
RV.rtest Man page
RVdist.randtest Man page
RVkdist Man page
Rtoade4 Man page
[.dudi Man page
[.kdist Man page
[.ktab Man page
abouheif.eg Man page
acacia Man page
acm.burt Man page
acm.disjonctif Man page
add.position.triangle Man page
add.scatter Man page Source code
add.scatter.eig Man page
ade4 Man page
ade4-deprecated Man page
ade4-package Man page
ade4toR Man page
adegraphicsLoaded Man page Source code
aminoacyl Man page
amova Man page Source code
apis108 Man page
apqe Man page Source code
aravo Man page
ardeche Man page
area.plot Man page
area.util.class Man page
area.util.contour Man page
area.util.xy Man page
area2link Man page
area2poly Man page
arrival Man page
as.data.frame.kdist Man page
as.dudi Man page
as.krandboot Man page Source code
as.krandtest Man page
as.krandxval Man page Source code
as.randboot Man page Source code
as.randtest Man page
as.randxval Man page Source code
as.rtest Man page
as.taxo Man page
atlas Man page
atya Man page
avijons Man page
avimedi Man page
aviurba Man page
bacteria Man page
banque Man page
baran95 Man page
bca Man page
bca.coinertia Man page Source code
bca.dpcoa Man page Source code
bca.dudi Man page
bca.rlq Man page
between Man page
betweencoinertia Man page Source code
bf88 Man page
bicenter.wt Man page
biplot.dudi Man page Source code
bordeaux Man page
boxplot.acm Man page
bsetal97 Man page
buech Man page
butterfly Man page
bwca.dpcoa Man page Source code
c.kdist Man page Source code
c.ktab Man page
cailliez Man page
capitales Man page
carni19 Man page
carni70 Man page
carniherbi49 Man page
casitas Man page
cca Man page
char2genet Man page
chatcat Man page
chats Man page
chazeb Man page
chevaine Man page
chickenk Man page
clementines Man page
cnc2003 Man page
coinertia Man page
col.names Man page
col.names.ktab Man page
col.names<- Man page
col.names<-.ktab Man page
coleo Man page
combine.4thcorner Man page Source code
combine.randtest.rlq Man page Source code
corkdist Man page
corvus Man page
costatis Man page
costatis.randtest Man page
count2genet Man page
covfacwt Man page Source code
covwt Man page Source code
deug Man page
disc Man page Source code
discrimin Man page
discrimin.coa Man page
dist.binary Man page
dist.dudi Man page
dist.genet Man page
dist.ktab Man page Source code
dist.neig Man page
dist.prop Man page
dist.quant Man page
dist.taxo Man page
divc Man page Source code
divcmax Man page Source code
dotchart.phylog Man page
dotcircle Man page
doubs Man page
dpcoa Man page Source code
dudi Man page
dudi.acm Man page
dudi.coa Man page
dudi.dec Man page
dudi.fca Man page
dudi.fpca Man page
dudi.hillsmith Man page
dudi.mix Man page
dudi.nsc Man page
dudi.pca Man page
dudi.pco Man page
dudi.type Man page Source code
dunedata Man page
ecg Man page
ecomor Man page
elec88 Man page
enum.phylog Man page Source code
escopage Man page
euro123 Man page
fac2disj Man page Source code
fission Man page
foucart Man page
fourthcorner Man page
fourthcorner.rlq Man page Source code
fourthcorner2 Man page
freq2genet Man page
friday87 Man page
fruits Man page
fuzzygenet Man page
gearymoran Man page
genet Man page
ggtortoises Man page
granulo Man page
gridrowcol Man page
haar2level Man page Source code
hclust2phylog Man page
hdpg Man page
housetasks Man page
humDNAm Man page
ichtyo Man page
inertia.dudi Man page
irishdata Man page
is.dudi Man page
is.euclid Man page
is.ktab Man page
is.orthobasis Man page Source code
julliot Man page
jv73 Man page
kcponds Man page
kdist Man page
kdist.cor Man page Source code
kdist2ktab Man page
kdisteuclid Man page Source code
kplot Man page
kplot.foucart Man page
kplot.mcoa Man page
kplot.mfa Man page
kplot.pta Man page
kplot.sepan Man page
kplot.statis Man page
kplotX.mdpcoa Man page Source code
kplotsepan.coa Man page
krandtest Man page
krandxval Man page
ktab Man page
ktab.data.frame Man page
ktab.list.df Man page
ktab.list.dudi Man page
ktab.match2ktabs Man page
ktab.util.addfactor Man page
ktab.util.names Man page
ktab.within Man page
lascaux Man page
ldist.ktab Man page Source code
lingoes Man page
lizards Man page
macaca Man page
macon Man page
macroloire Man page
mafragh Man page
mantel.randtest Man page
mantel.rtest Man page
mantelkdist Man page
maples Man page
mariages Man page
mbpcaiv Man page Source code
mbpls Man page Source code
mcoa Man page
mdpcoa Man page Source code
meanfacwt Man page Source code
meau Man page
meaudret Man page
mfa Man page
microsatt Man page
mjrochet Man page
mld Man page
mollusc Man page
monde84 Man page
morphosport Man page
mstree Man page Source code
multispati Man page
multispati.randtest Man page
multispati.rtest Man page
nb2neig Man page
neig Man page
neig.util.GtoL Man page
neig.util.LtoG Man page
neig2mat Man page
neig2nb Man page
newick.eg Man page
newick2phylog Man page
newick2phylog.addtools Man page
niche Man page
niche.param Man page
nipals Man page
njplot Man page
olympic Man page
optimEH Man page
oribatid Man page
originality Man page Source code
orisaved Man page
orthobasis Man page
orthobasis.circ Man page
orthobasis.haar Man page
orthobasis.line Man page
orthobasis.mat Man page Source code
orthobasis.neig Man page
orthogram Man page
orthogram-deprecated Man page
ours Man page
p.adjust.4thcorner Man page Source code
palm Man page
pap Man page
pcaiv Man page
pcaivortho Man page
pcoscaled Man page
pcw Man page
perthi02 Man page
phylog Man page
phylog.extract Man page
phylog.permut Man page Source code
piosphere Man page
plot.4thcorner Man page Source code
plot.betcoi Man page Source code
plot.betrlq Man page
plot.between Man page
plot.coinertia Man page
plot.corkdist Man page Source code
plot.discrimin Man page
plot.dpcoa Man page Source code
plot.foucart Man page
plot.krandtest Man page
plot.mcoa Man page
plot.mfa Man page
plot.multispati Man page
plot.niche Man page
plot.orthobasis Man page Source code
plot.pcaiv Man page
plot.phylog Man page
plot.procuste Man page
plot.pta Man page
plot.randtest Man page
plot.rlq Man page
plot.rtest Man page
plot.sepan Man page
plot.statis Man page
plot.witcoi Man page Source code
plot.within Man page
plot.witrlq Man page
poly2area Man page
prep.binary Man page Source code
prep.circular Man page Source code
prep.fuzzy Man page Source code
prep.fuzzy.var Man page
prep.mdpcoa Man page Source code
presid2002 Man page
print.4thcorner Man page
print.amova Man page Source code
print.apqe Man page Source code
print.betcoi Man page Source code
print.betdpcoa Man page Source code
print.betrlq Man page
print.between Man page
print.coinertia Man page
print.corkdist Man page
print.discrimin Man page
print.dpcoa Man page Source code
print.dudi Man page
print.foucart Man page
print.kdist Man page
print.krandboot Man page Source code
print.krandtest Man page
print.krandxval Man page Source code
print.ktab Man page
print.mcoa Man page
print.mfa Man page
print.multiblock Man page Source code
print.multispati Man page Source code
print.neig Man page
print.niche Man page
print.nipals Man page Source code
print.orthobasis Man page Source code
print.pcaiv Man page
print.phylog Man page
print.procuste Man page
print.pta Man page
print.randboot Man page Source code
print.randtest Man page
print.randxval Man page Source code
print.rlq Man page
print.rtest Man page
print.sepan Man page
print.statis Man page
print.witcoi Man page Source code
print.witdpcoa Man page Source code
print.within Man page
print.witrlq Man page
procella Man page
procuste Man page
procuste.randtest Man page
procuste.rtest Man page
pta Man page
quasieuclid Man page
radial.phylog Man page
randEH Man page
randboot Man page Source code
randboot.multiblock Man page Source code
randtest Man page
randtest.amova Man page Source code
randtest.between Man page
randtest.betwit Man page Source code
randtest.cca Man page
randtest.coinertia Man page
randtest.discrimin Man page
randtest.pcaiv Man page
randtest.pcaivortho Man page
randtest.procuste Man page
randtest.rlq Man page Source code
randxval Man page
rankrock Man page
reciprocal.coa Man page
reconst Man page
reconst.coa Man page
reconst.pca Man page
redo.dudi Man page
rhizobium Man page
rhone Man page
rlq Man page
row.names.ktab Man page
row.names<-.ktab Man page
rpjdl Man page
rtest Man page
rtest.between Man page
rtest.discrimin Man page
rtest.niche Man page Source code
s.arrow Man page
s.chull Man page
s.class Man page
s.corcircle Man page
s.distri Man page
s.hist Man page
s.image Man page Source code
s.kde2d Man page
s.label Man page
s.logo Man page
s.match Man page
s.match.class Man page Source code
s.multinom Man page
s.traject Man page
s.value Man page
santacatalina Man page
sarcelles Man page
scalefacwt Man page Source code
scalewt Man page Source code
scatter Man page
scatter.acm Man page
scatter.coa Man page
scatter.dudi Man page
scatter.fca Man page
scatter.nipals Man page Source code
scatter.pco Man page
scatterutil Man page
scatterutil.base Man page
scatterutil.chull Man page
scatterutil.convrot90 Man page
scatterutil.eigen Man page
scatterutil.ellipse Man page
scatterutil.eti Man page
scatterutil.eti.circ Man page
scatterutil.grid Man page
scatterutil.legend.bw.square Man page
scatterutil.legend.square.grey Man page
scatterutil.legendgris Man page
scatterutil.logo Man page
scatterutil.scaling Man page
scatterutil.sco Man page
scatterutil.star Man page
scatterutil.sub Man page
sco.boxplot Man page
sco.class Man page
sco.distri Man page
sco.gauss Man page
sco.label Man page
sco.match Man page
sco.quant Man page
score Man page
score.acm Man page
score.coa Man page
score.mix Man page
score.pca Man page
scores.neig Man page
scoreutil.base Man page
screeplot.dudi Man page Source code
seconde Man page
sepan Man page
skulls Man page
statico Man page
statico.krandtest Man page
statis Man page
steppe Man page
summary.4thcorner Man page
summary.between Man page Source code
summary.betwit Man page Source code
summary.cca Man page Source code
summary.coinertia Man page
summary.corkdist Man page Source code
summary.dist Man page
summary.dpcoa Man page Source code
summary.dudi Man page Source code
summary.mcoa Man page
summary.mfa Man page
summary.multiblock Man page Source code
summary.multispati Man page
summary.neig Man page
summary.orthobasis Man page Source code
summary.pcaiv Man page Source code
summary.pcaivortho Man page Source code
summary.rlq Man page
summary.sepan Man page
summary.within Man page Source code
summary.witwit Man page
supcol Man page
supcol.coa Man page
supcol.dudi Man page
suprow Man page
suprow.coa Man page
suprow.dudi Man page
suprow.pca Man page
symbols.phylog Man page
syndicats Man page
t.dudi Man page
t.ktab Man page
t3012 Man page
tab.names Man page
tab.names.ktab Man page
tab.names<- Man page
tab.names<-.ktab Man page
table.cont Man page
table.dist Man page
table.paint Man page
table.phylog Man page
table.prepare Man page
table.value Man page
tarentaise Man page
taxo.eg Man page
taxo2phylog Man page Source code
testamova Man page Source code
testdim Man page
testdim.multiblock Man page Source code
testdim.pca Man page
testdiscrimin Man page Source code
testertrace Man page Source code
testertracenu Man page Source code
testertracenubis Man page Source code
testertracerlq Man page Source code
testinter Man page Source code
testmantel Man page Source code
testprocuste Man page Source code
tintoodiel Man page
tithonia Man page
tortues Man page
toxicity Man page
triangle.biplot Man page
triangle.class Man page
triangle.param Man page
triangle.plot Man page
triangle.posipoint Man page
trichometeo Man page
ungulates Man page
uniquewt.df Man page
varfacwt Man page Source code
variance.phylog Man page
varwt Man page Source code
vegtf Man page
veuvage Man page
wca Man page Source code
wca.coinertia Man page Source code
wca.dpcoa Man page Source code
wca.dudi Man page
wca.rlq Man page
westafrica Man page
within Man page
withincoinertia Man page Source code
withinpca Man page
witwit.coa Man page
witwitsepan Man page Source code
woangers Man page
worksurv Man page
yanomama Man page
zealand Man page

Files

ChangeLog
DESCRIPTION
NAMESPACE
R
R/EH.R
R/PI2newick.R
R/RV.rtest.R
R/RVdist.randtest.R
R/add.scatter.R
R/ade4toR.R
R/amova.R
R/apqe.R
R/area.plot.R
R/as.taxo.R
R/bca.rlq.R
R/between.R
R/betweencoinertia.R
R/betwitdpcoa.R
R/bicenter.wt.R
R/cailliez.R
R/cca.R
R/coinertia.R
R/combine.4thcorner.R
R/corkdist.R
R/costatis.R
R/disc.R
R/discrimin.R
R/discrimin.coa.R
R/dist.binary.R
R/dist.dudi.R
R/dist.genet.R
R/dist.ktab.R
R/dist.neig.R
R/dist.prop.R
R/dist.quant.R
R/divc.R
R/divcmax.R
R/dotchart.phylog.R
R/dotcircle.R
R/dpcoa.R
R/dudi.R
R/dudi.acm.R
R/dudi.coa.R
R/dudi.dec.R
R/dudi.fca.R
R/dudi.hillsmith.R
R/dudi.mix.R
R/dudi.nsc.R
R/dudi.pca.R
R/dudi.pco.R
R/foucart.R
R/fourthcorner.R
R/fourthcorner.rlq.R
R/fourthcorner2.R
R/fuzzygenet.R
R/gearymoran.R
R/genet.R
R/gridrowcol.R
R/inertia.dudi.R
R/is.euclid.R
R/kdist.R
R/kdist2ktab.R
R/kdisteuclid.R
R/kplot.R
R/kplot.foucart.R
R/kplot.mcoa.R
R/kplot.mfa.R
R/kplot.pta.R
R/kplot.sepan.R
R/kplot.statis.R
R/krandboot.R
R/krandtest.R
R/krandxval.R
R/ktab.R
R/ktab.data.frame.R
R/ktab.list.df.R
R/ktab.list.dudi.R
R/ktab.match2ktabs.R
R/ktab.within.R
R/lingoes.R
R/mantel.randtest.R
R/mantel.rtest.R
R/mbpcaiv.R
R/mbpls.R
R/mcoa.R
R/mdpcoa.R
R/mfa.R
R/mld.R
R/mstree.R
R/multiblock.R
R/multispati.R
R/multispati.randtest.R
R/multispati.rtest.R
R/neig.R
R/newick2phylog.R
R/niche.R
R/nipals.R
R/optimEH.R
R/originality.R
R/orisaved.R
R/orthobasis.R
R/orthogram.R
R/p.adjust.4thcorner.R
R/pcaiv.R
R/pcaivortho.R
R/pcoscaled.R
R/phylog.R
R/plot.4thcorner.R
R/plot.phylog.R
R/print.4thcorner.R
R/procuste.R
R/procuste.randtest.R
R/procuste.rtest.R
R/pta.R
R/quasieuclid.R
R/randEH.R
R/randboot.R
R/randtest-internal.R
R/randtest.R
R/randtest.amova.R
R/randtest.between.R
R/randtest.cca.R
R/randtest.coinertia.R
R/randtest.discrimin.R
R/randtest.pcaiv.R
R/randtest.pcaivortho.R
R/randtest.rlq.R
R/randxval.R
R/reconst.R
R/rlq.R
R/rtest.R
R/rtest.between.R
R/rtest.discrimin.R
R/s.arrow.R
R/s.chull.R
R/s.class.R
R/s.corcircle.R
R/s.distri.R
R/s.hist.R
R/s.image.R
R/s.kde2d.R
R/s.label.R
R/s.logo.R
R/s.match.R
R/s.match.class.R
R/s.multinom.R
R/s.traject.R
R/s.value.R
R/scalewt.R
R/scatter.R
R/scatter.acm.R
R/scatter.coa.R
R/scatter.dudi.R
R/scatter.fca.R
R/scatterutil.R
R/sco.boxplot.R
R/sco.class.R
R/sco.distri.R
R/sco.gauss.R
R/sco.label.R
R/sco.match.R
R/sco.quant.R
R/score.R
R/score.acm.R
R/score.coa.R
R/score.mix.R
R/score.pca.R
R/sepan.R
R/statico.R
R/statis.R
R/summary.4thcorner.R
R/supcol.R
R/suprow.R
R/symbols.phylog.R
R/table.cont.R
R/table.dist.R
R/table.paint.R
R/table.phylog.R
R/table.value.R
R/testdim.R
R/triangle.class.R
R/triangle.plot.R
R/uniquewt.df.R
R/utilities.R
R/variance.phylog.R
R/wca.rlq.R
R/within.R
R/withincoinertia.R
R/withinpca.R
R/witwit.R
R/witwitsepan.R
data
data/abouheif.eg.rda
data/acacia.rda
data/aminoacyl.rda
data/apis108.rda
data/aravo.rda
data/ardeche.rda
data/arrival.rda
data/atlas.rda
data/atya.rda
data/avijons.rda
data/avimedi.rda
data/aviurba.rda
data/bacteria.rda
data/banque.rda
data/baran95.rda
data/bf88.rda
data/bordeaux.rda
data/bsetal97.rda
data/buech.rda
data/butterfly.rda
data/capitales.rda
data/carni19.rda
data/carni70.rda
data/carniherbi49.rda
data/casitas.rda
data/chatcat.rda
data/chats.rda
data/chazeb.rda
data/chevaine.rda
data/chickenk.rda
data/clementines.rda
data/cnc2003.rda
data/coleo.rda
data/corvus.rda
data/datalist
data/deug.rda
data/doubs.rda
data/dunedata.rda
data/ecg.rda
data/ecomor.rda
data/elec88.rda
data/escopage.rda
data/euro123.rda
data/fission.rda
data/friday87.rda
data/fruits.rda
data/ggtortoises.rda
data/granulo.rda
data/hdpg.rda
data/housetasks.rda
data/humDNAm.rda
data/ichtyo.rda
data/irishdata.rda
data/julliot.rda
data/jv73.rda
data/kcponds.rda
data/lascaux.rda
data/lizards.rda
data/macaca.rda
data/macon.rda
data/macroloire.rda
data/mafragh.rda
data/maples.rda
data/mariages.rda
data/meau.rda
data/meaudret.rda
data/microsatt.rda
data/mjrochet.rda
data/mollusc.rda
data/monde84.rda
data/morphosport.rda
data/newick.eg.rda
data/njplot.rda
data/olympic.rda
data/oribatid.rda
data/ours.rda
data/palm.rda
data/pap.rda
data/pcw.rda
data/perthi02.rda
data/piosphere.rda
data/presid2002.rda
data/procella.rda
data/rankrock.rda
data/rhizobium.rda
data/rhone.rda
data/rpjdl.rda
data/santacatalina.rda
data/sarcelles.rda
data/seconde.rda
data/skulls.rda
data/steppe.rda
data/syndicats.rda
data/t3012.rda
data/tarentaise.rda
data/taxo.eg.rda
data/tintoodiel.rda
data/tithonia.rda
data/tortues.rda
data/toxicity.rda
data/trichometeo.rda
data/ungulates.rda
data/vegtf.rda
data/veuvage.rda
data/westafrica.rda
data/woangers.rda
data/worksurv.rda
data/yanomama.rda
data/zealand.rda
inst
inst/CITATION
inst/pictures
inst/pictures/atyacarto.pnm
inst/pictures/atyadigi.pnm
inst/pictures/avijonseau.pnm
inst/pictures/avijonsrou.pnm
inst/pictures/avijonsveg.pnm
inst/pictures/avijonsvil.pnm
inst/pictures/butterfly.pnm
inst/pictures/capitales.pnm
inst/pictures/fatala.pnm
inst/pictures/france_sm00.pnm
inst/pictures/ireland.pnm
inst/pictures/paris.pnm
inst/pictures/sarcelles.pnm
inst/pictures/tintoodiel.pnm
man
man/EH.Rd
man/PI2newick.Rd
man/RV.rtest.Rd
man/RVdist.randtest.Rd
man/abouheif.eg.Rd
man/acacia.Rd
man/add.scatter.Rd
man/ade4-deprecated.Rd
man/ade4-internal.Rd
man/ade4.package.Rd
man/ade4toR.Rd
man/adegraphicsLoaded.Rd
man/aminoacyl.Rd
man/amova.Rd
man/apis108.Rd
man/apqe.Rd
man/aravo.Rd
man/ardeche.Rd
man/area.plot.Rd
man/arrival.Rd
man/as.taxo.Rd
man/atlas.Rd
man/atya.Rd
man/avijons.Rd
man/avimedi.Rd
man/aviurba.Rd
man/bacteria.Rd
man/banque.Rd
man/baran95.Rd
man/bca.rlq.Rd
man/between.Rd
man/betweencoinertia.Rd
man/bf88.Rd
man/bicenter.wt.Rd
man/bordeaux.Rd
man/bsetal97.Rd
man/buech.Rd
man/butterfly.Rd
man/bwca.dpcoa.Rd
man/cailliez.Rd
man/capitales.Rd
man/carni19.Rd
man/carni70.Rd
man/carniherbi49.Rd
man/casitas.Rd
man/cca.Rd
man/chatcat.Rd
man/chats.Rd
man/chazeb.Rd
man/chevaine.Rd
man/chickenk.Rd
man/clementines.Rd
man/cnc2003.Rd
man/coinertia.Rd
man/coleo.Rd
man/combine.4thcorner.Rd
man/corkdist.Rd
man/corvus.Rd
man/costatis.Rd
man/costatis.randtest.Rd
man/deug.Rd
man/disc.Rd
man/discrimin.Rd
man/discrimin.coa.Rd
man/dist.binary.Rd
man/dist.dudi.Rd
man/dist.genet.Rd
man/dist.ktab.Rd
man/dist.neig.Rd
man/dist.prop.Rd
man/dist.quant.Rd
man/divc.Rd
man/divcmax.Rd
man/dotchart.phylog.Rd
man/dotcircle.Rd
man/doubs.Rd
man/dpcoa.Rd
man/dudi.Rd
man/dudi.acm.Rd
man/dudi.coa.Rd
man/dudi.dec.Rd
man/dudi.fca.Rd
man/dudi.hillsmith.Rd
man/dudi.mix.Rd
man/dudi.nsc.Rd
man/dudi.pca.Rd
man/dudi.pco.Rd
man/dunedata.Rd
man/ecg.Rd
man/ecomor.Rd
man/elec88.Rd
man/escopage.Rd
man/euro123.Rd
man/fission.Rd
man/foucart.Rd
man/fourthcorner.Rd
man/friday87.Rd
man/fruits.Rd
man/fuzzygenet.Rd
man/gearymoran.Rd
man/genet.Rd
man/ggtortoises.Rd
man/granulo.Rd
man/gridrowcol.Rd
man/hdpg.Rd
man/housetasks.Rd
man/humDNAm.Rd
man/ichtyo.Rd
man/inertia.dudi.Rd
man/irishdata.Rd
man/is.euclid.Rd
man/julliot.Rd
man/jv73.Rd
man/kcponds.Rd
man/kdist.Rd
man/kdist2ktab.Rd
man/kdisteuclid.Rd
man/kplot.Rd
man/kplot.foucart.Rd
man/kplot.mcoa.Rd
man/kplot.mfa.Rd
man/kplot.pta.Rd
man/kplot.sepan.Rd
man/kplot.statis.Rd
man/krandtest.Rd
man/ktab.Rd
man/ktab.data.frame.Rd
man/ktab.list.df.Rd
man/ktab.list.dudi.Rd
man/ktab.match2ktabs.Rd
man/ktab.within.Rd
man/lascaux.Rd
man/lingoes.Rd
man/lizards.Rd
man/macaca.Rd
man/macon.Rd
man/macroloire.Rd
man/mafragh.Rd
man/mantel.randtest.Rd
man/mantel.rtest.Rd
man/maples.Rd
man/mariages.Rd
man/mbpcaiv.Rd
man/mbpls.Rd
man/mcoa.Rd
man/mdpcoa.Rd
man/meau.Rd
man/meaudret.Rd
man/mfa.Rd
man/microsatt.Rd
man/mjrochet.Rd
man/mld.Rd
man/mollusc.Rd
man/monde84.Rd
man/morphosport.Rd
man/mstree.Rd
man/multiblock.Rd
man/multispati.Rd
man/multispati.randtest.Rd
man/multispati.rtest.Rd
man/neig.Rd
man/newick.eg.Rd
man/newick2phylog.Rd
man/niche.Rd
man/nipals.Rd
man/njplot.Rd
man/olympic.Rd
man/optimEH.Rd
man/oribatid.Rd
man/originality.Rd
man/orisaved.Rd
man/orthobasis.Rd
man/orthogram.Rd
man/ours.Rd
man/palm.Rd
man/pap.Rd
man/pcaiv.Rd
man/pcaivortho.Rd
man/pcoscaled.Rd
man/pcw.Rd
man/perthi02.Rd
man/phylog.Rd
man/piosphere.Rd
man/plot.between.Rd
man/plot.phylog.Rd
man/plot.within.Rd
man/presid2002.Rd
man/procella.Rd
man/procuste.Rd
man/procuste.randtest.Rd
man/procuste.rtest.Rd
man/pta.Rd
man/quasieuclid.Rd
man/randEH.Rd
man/randboot.Rd
man/randboot.multiblock.Rd
man/randtest.Rd
man/randtest.amova.Rd
man/randtest.between.Rd
man/randtest.coinertia.Rd
man/randtest.discrimin.Rd
man/randtest.pcaiv.Rd
man/randxval.Rd
man/rankrock.Rd
man/reconst.Rd
man/rhizobium.Rd
man/rhone.Rd
man/rlq.Rd
man/rpjdl.Rd
man/rtest.Rd
man/rtest.between.Rd
man/rtest.discrimin.Rd
man/s.arrow.Rd
man/s.chull.Rd
man/s.class.Rd
man/s.corcircle.Rd
man/s.distri.Rd
man/s.hist.Rd
man/s.image.Rd
man/s.kde2d.Rd
man/s.label.Rd
man/s.logo.Rd
man/s.match.Rd
man/s.match.class.Rd
man/s.multinom.Rd
man/s.traject.Rd
man/s.value.Rd
man/santacatalina.Rd
man/sarcelles.Rd
man/scalewt.Rd
man/scatter.Rd
man/scatter.acm.Rd
man/scatter.coa.Rd
man/scatter.dudi.Rd
man/scatter.fca.Rd
man/scatterutil.Rd
man/sco.boxplot.Rd
man/sco.class.Rd
man/sco.distri.Rd
man/sco.gauss.Rd
man/sco.label.Rd
man/sco.match.Rd
man/sco.quant.Rd
man/score.Rd
man/score.acm.Rd
man/score.coa.Rd
man/score.mix.Rd
man/score.pca.Rd
man/seconde.Rd
man/sepan.Rd
man/skulls.Rd
man/statico.Rd
man/statico.krandtest.Rd
man/statis.Rd
man/steppe.Rd
man/supcol.Rd
man/suprow.Rd
man/symbols.phylog.Rd
man/syndicats.Rd
man/t3012.Rd
man/table.cont.Rd
man/table.dist.Rd
man/table.paint.Rd
man/table.phylog.Rd
man/table.value.Rd
man/tarentaise.Rd
man/taxo.eg.Rd
man/testdim.Rd
man/testdim.multiblock.Rd
man/tintoodiel.Rd
man/tithonia.Rd
man/tortues.Rd
man/toxicity.Rd
man/triangle.class.Rd
man/triangle.plot.Rd
man/trichometeo.Rd
man/ungulates.Rd
man/uniquewt.df.Rd
man/variance.phylog.Rd
man/vegtf.Rd
man/veuvage.Rd
man/wca.rlq.Rd
man/westafrica.Rd
man/within.Rd
man/withincoinertia.Rd
man/withinpca.Rd
man/witwit.coa.Rd
man/woangers.Rd
man/worksurv.Rd
man/yanomama.Rd
man/zealand.Rd
src
src/Makevars
src/adesub.c
src/adesub.h
src/divsub.c
src/divsub.h
src/fourthcorner.c
src/phylog.c
src/testamova.c
src/testdim.c
src/testrlq.c
src/tests.c
ade4 documentation built on May 21, 2017, 2:56 a.m.