ade4: Analysis of Ecological Data : Exploratory and Euclidean Methods in Environmental Sciences

Multivariate data analysis and graphical display.

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
http://pbil.univ-lyon1.fr/ADE-4
Mailing list: http://listes.univ-lyon1.fr/wws/info/adelist

View on R-Forge

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

abouheif.eg Man page
acacia Man page
acm.burt Man page
acm.disjonctif Man page
add.position.triangle Man page
add.scatter Man page
add.scatter.eig Man page
ade4 Man page
ade4-deprecated Man page
ade4-package Man page
ade4toR Man page
adegraphicsLoaded Man page
aminoacyl Man page
amova Man page
apis108 Man page
apqe Man page
aravo Man page
ardeche Man page
area2link Man page
area2poly Man page
area.plot Man page
area.util.class Man page
area.util.contour Man page
area.util.xy Man page
arrival Man page
as.data.frame.kdist Man page
as.dudi Man page
as.krandboot Man page
as.krandtest Man page
as.krandxval Man page
as.randboot Man page
as.randtest Man page
as.randxval Man page
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
bca.dpcoa Man page
bca.dudi Man page
bca.rlq Man page
between Man page
betweencoinertia Man page
bf88 Man page
bicenter.wt Man page
biplot.dudi Man page
bordeaux Man page
boxplot.acm Man page
bsetal97 Man page
buech Man page
butterfly Man page
bwca.dpcoa 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
c.kdist Man page
c.ktab Man page
clementines Man page
cnc2003 Man page
coinertia Man page
coleo Man page
col.names Man page
col.names<- Man page
col.names<-.ktab Man page
col.names.ktab Man page
combine.4thcorner Man page
combine.randtest.rlq Man page
corkdist Man page
corvus Man page
costatis Man page
costatis.randtest Man page
count2genet Man page
covfacwt Man page
covwt Man page
deug Man page
disc Man page
discrimin Man page
discrimin.coa Man page
dist.binary Man page
dist.dudi Man page
dist.genet Man page
dist.ktab Man page
dist.neig Man page
dist.prop Man page
dist.quant Man page
dist.taxo Man page
divc Man page
divcmax Man page
dotchart.phylog Man page
dotcircle Man page
doubs Man page
dpcoa Man page
dudi Man page
[.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
dunedata Man page
ecg Man page
ecomor Man page
EH Man page
elec88 Man page
enum.phylog Man page
escopage Man page
euro123 Man page
fac2disj Man page
fission Man page
foucart Man page
fourthcorner Man page
fourthcorner2 Man page
fourthcorner.rlq 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
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
julliot Man page
jv73 Man page
kcponds Man page
kdist Man page
[.kdist Man page
kdist2ktab Man page
kdist.cor Man page
kdisteuclid Man page
kplot Man page
kplot.foucart Man page
kplot.mcoa Man page
kplot.mfa Man page
kplot.pta Man page
kplot.sepan Man page
kplotsepan.coa Man page
kplot.statis Man page
kplotX.mdpcoa Man page
krandtest Man page
krandxval Man page
ktab 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
lingoes Man page
lizards Man page
macaca Man page
macon Man page
macroloire Man page
mafragh Man page
mantelkdist Man page
mantel.randtest Man page
mantel.rtest Man page
maples Man page
mariages Man page
mbpcaiv Man page
mbpls Man page
mcoa Man page
mdpcoa Man page
meanfacwt Man page
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
multispati Man page
multispati.randtest Man page
multispati.rtest Man page
nb2neig Man page
neig Man page
neig2mat Man page
neig2nb Man page
neig.util.GtoL Man page
neig.util.LtoG Man page
newick2phylog Man page
newick2phylog.addtools Man page
newick.eg 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
orisaved Man page
orthobasis Man page
orthobasis.circ Man page
orthobasis.haar Man page
orthobasis.line Man page
orthobasis.mat Man page
orthobasis.neig Man page
orthogram Man page
orthogram-deprecated Man page
ours Man page
p.adjust.4thcorner Man page
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
PI2newick Man page
piosphere Man page
plot.4thcorner Man page
plot.betcoi Man page
plot.betrlq Man page
plot.between Man page
plot.coinertia Man page
plot.corkdist Man page
plot.discrimin Man page
plot.dpcoa Man page
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
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
plot.within Man page
plot.witrlq Man page
poly2area Man page
prep.binary Man page
prep.circular Man page
prep.fuzzy Man page
prep.fuzzy.var Man page
prep.mdpcoa Man page
presid2002 Man page
print.4thcorner Man page
print.amova Man page
print.apqe Man page
print.betcoi Man page
print.betdpcoa Man page
print.betrlq Man page
print.between Man page
print.coinertia Man page
print.corkdist Man page
print.discrimin Man page
print.dpcoa Man page
print.dudi Man page
print.foucart Man page
print.kdist Man page
print.krandboot Man page
print.krandtest Man page
print.krandxval Man page
print.ktab Man page
print.mcoa Man page
print.mfa Man page
print.multiblock Man page
print.multispati Man page
print.neig Man page
print.niche Man page
print.nipals Man page
print.orthobasis Man page
print.pcaiv Man page
print.phylog Man page
print.procuste Man page
print.pta Man page
print.randboot Man page
print.randtest Man page
print.randxval Man page
print.rlq Man page
print.rtest Man page
print.sepan Man page
print.statis Man page
print.witcoi Man page
print.witdpcoa Man page
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
randboot Man page
randboot.multiblock Man page
randEH Man page
randtest Man page
randtest.amova Man page
randtest.between Man page
randtest.betwit Man page
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
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
Rtoade4 Man page
RVdist.randtest Man page
RVkdist Man page
RV.rtest Man page
santacatalina Man page
sarcelles Man page
s.arrow Man page
scalefacwt Man page
scalewt Man page
scatter Man page
scatter.acm Man page
scatter.coa Man page
scatter.dudi Man page
scatter.fca Man page
scatter.nipals Man page
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.legendgris Man page
scatterutil.legend.square.grey Man page
scatterutil.logo Man page
scatterutil.scaling Man page
scatterutil.sco Man page
scatterutil.star Man page
scatterutil.sub Man page
s.chull Man page
s.class 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
s.corcircle 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
s.distri Man page
seconde Man page
sepan Man page
s.hist Man page
s.image Man page
s.kde2d Man page
skulls Man page
s.label Man page
s.logo Man page
s.match Man page
s.match.class Man page
s.multinom Man page
statico Man page
statico.krandtest Man page
statis Man page
steppe Man page
s.traject Man page
summary.4thcorner Man page
summary.between Man page
summary.betwit Man page
summary.cca Man page
summary.coinertia Man page
summary.corkdist Man page
summary.dist Man page
summary.dpcoa Man page
summary.dudi Man page
summary.mcoa Man page
summary.mfa Man page
summary.multiblock Man page
summary.multispati Man page
summary.neig Man page
summary.orthobasis Man page
summary.pcaiv Man page
summary.pcaivortho Man page
summary.rlq Man page
summary.sepan Man page
summary.within Man page
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
s.value Man page
symbols.phylog Man page
syndicats Man page
t3012 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
tab.names Man page
tab.names<- Man page
tab.names<-.ktab Man page
tab.names.ktab Man page
tarentaise Man page
taxo2phylog Man page
taxo.eg Man page
t.dudi Man page
testamova Man page
testdim Man page
testdim.multiblock Man page
testdim.pca Man page
testdiscrimin Man page
testertrace Man page
testertracenu Man page
testertracenubis Man page
testertracerlq Man page
testinter Man page
testmantel Man page
testprocuste Man page
tintoodiel Man page
tithonia Man page
t.ktab 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
variance.phylog Man page
varwt Man page
vegtf Man page
veuvage Man page
wca Man page
wca.coinertia Man page
wca.dpcoa Man page
wca.dudi Man page
wca.rlq Man page
westafrica Man page
within Man page
withincoinertia Man page
withinpca Man page
witwit.coa Man page
witwitsepan Man page
woangers Man page
worksurv Man page
yanomama Man page
zealand Man page

Files

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

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