ade4

Import data files from Phylogenetic Independance Package

Monte-Carlo Test on the sum of eigenvalues of a co-inertia analysis (in R).

Tests of randomization on the correlation between two distance matrices (in R).

Phylogenies and quantitative traits from Abouheif

Spatial pattern analysis in plant communities

Add graphics to an existing plot

Deprecated functions in ade4

Internal ade4 functions

The ade4 package

Utility function to test if the package adegraphics is loaded

Codon usage

Analysis of molecular variance

Allelic frequencies in ten honeybees populations at eight microsatellites loci

Apportionment of Quadratic Entropy

Distribution of Alpine plants in Aravo (Valloire, France)

Fauna Table with double (row and column) partitioning

Graphical Display of Areas

Arrivals at an intensive care unit

Taxonomy

Small Ecological Dataset

Genetic variability of Cacadors

Bird species distribution

Fauna Table for Constrained Ordinations

Ecological Tables Triplet

Genomes of 43 Bacteria

Table of Factors

African Estuary Fishes

Between-Class Analysis

Between-class coinertia analysis

Between-Class RLQ analysis

Cubic Ecological Data

Double Weighted Centring

Wine Tasting

Ecological and Biological Traits

Buech basin

Genetics-Ecology-Environment Triple

Between- and within-class double principal coordinate analysis

Transformation to make Euclidean a distance matrix

Road Distances

Phylogeny and quantative trait of carnivora

Phylogeny and quantitative traits of carnivora

Taxonomy, phylogenies and quantitative traits of carnivora and herbivora

Enzymatic polymorphism in Mus musculus

Qualitative Weighted Variables

Pair of Variables

Charolais-Zebus

Enzymatic polymorphism in Leuciscus cephalus

Veterinary epidemiological study to assess the risk factors for losses in broiler chickens

Fruit Production

Frequenting movie theaters in France in 2003

Coinertia Analysis

Table of Fuzzy Biological Traits

Functions to combine and adjust the outputs 3-table methods

Tests of randomization between distances applied to 'kdist' objetcs

Corvus morphology

STATIS and Co-Inertia : Analysis of a series of paired ecological tables

Monte-Carlo test on a Costatis analysis (in C).

Dagnelie multinormality test

Exam marks for some students

Rao's dissimilarity coefficient

Linear Discriminant Analysis (descriptive statistic)

Discriminant Correspondence Analysis

Computation of Distance Matrices for Binary Data

Computation of the Distance Matrix from a Statistical Triplet

Mixed-variables coefficient of distance

Computation of the Distance Matrix associated to a Neighbouring Graph

Computation of Distance Matrices of Percentage Data

Computation of Distance Matrices on Quantitative Variables

Rao's diversity coefficient also called quadratic entropy

Maximal value of Rao's diversity coefficient also called quadratic entropy

Representation of many quantitative variables in front of a phylogenetic tree

Representation of n values on a circle

Pair of Ecological Tables

Double principal coordinate analysis

Duality Diagram

Multiple Correspondence Analysis

Correspondence Analysis

Decentred Correspondence Analysis

Fuzzy Correspondence Analysis and Fuzzy Principal Components Analysis

Ordination of Tables mixing quantitative variables and factors

Ordination of Tables mixing quantitative variables and factors

Non symmetric correspondence analysis

Principal Component Analysis

Principal Coordinates Analysis

Dune Meadow Data

Electrocardiogram data

Ecomorphological Convergence

Electoral Data

K-tables of wine-tasting

Triangular Data

Fission pattern and heritable morphological traits

K-tables Correspondence Analysis with the same rows and the same columns

Functions to compute the fourth-corner statistic

Faunistic K-tables

Pair of Tables

Moran's I and Geary'c randomization tests for spatial and phylogenetic autocorrelation

Microsatellites of Galapagos tortoises populations

Granulometric Curves

Complete regular grid analysis

Genetic Variation In Human Populations

Contingency Table

human mitochondrial DNA restriction data

Point sampling of fish community

Decomposition of inertia (i.e. contributions) in multivariate methods

Geary's Irish Data

Is a Distance Matrix Euclidean?

Seed dispersal

K-tables Multi-Regions

Ponds in a nature reserve

the class of objects 'kdist' (K distance matrices)

Transformation of K distance matrices (object 'kdist') into K Euclidean representations (object 'ktab')

a way to obtain Euclidean distance matrices

Generic Function for Multiple Graphs in a K-tables Analysis

Multiple Graphs for the Foucart's Correspondence Analysis

Multiple Graphs for a Multiple Co-inertia Analysis

Multiple Graphs for a Multiple Factorial Analysis

Multiple Graphs for a Partial Triadic Analysis

Multiple Graphs for Separated Analyses in a K-tables

Multiple Graphs of a STATIS Analysis

Class of the Permutation Tests (in C).

the class of objects 'ktab' (K-tables)

Creation of K-tables from a data frame

Creating a K-tables from a list of data frames.

Creation of a K-tables from a list of duality diagrams

STATIS and Co-Inertia : Analysis of a series of paired ecological tables

Process to go from a Within Analysis to a K-tables

Genetic/Environment and types of variables

Transformation of a Distance Matrix for becoming Euclidean

Phylogeny and quantitative traits of lizards

Leave-one-out cross-validation for a bca

Leave-one-out cross-validation for a discrimin analysis

Leave-one-out cross-validation for a dudi

Landmarks

Wine Tasting

Assemblages of Macroinvertebrates in the Loire River (France)

Phyto-Ecological Survey

Mantel test (correlation between two distance matrices (in C).)

Mantel test (correlation between two distance matrices (in R).)

Phylogeny and quantitative traits of flowers

Correspondence Analysis Table

Multiblock principal component analysis with instrumental variables

Multiblock partial least squares

Multiple CO-inertia Analysis

Multiple Double Principal Coordinate Analysis

Ecological Data : sites-variables, sites-species, where and when

Ecological Data : sites-variables, sites-species, where and when

Multiple Factorial Analysis

Genetic Relationships between cattle breeds with microsatellites

Phylogeny and quantitative traits of teleos fishes

Multi Level Decomposition of unidimensional data

Faunistic Communities and Sampling Experiment

Global State of the World in 1984

Athletes' Morphology

Minimal Spanning Tree

Display and summarize multiblock objects

Multivariate spatial analysis

Multivariate spatial autocorrelation test (in C)

Multivariate spatial autocorrelation test

Neighbourhood Graphs

Phylogenetic trees in Newick format

Create phylogeny

Method to Analyse a pair of tables : Environmental and Faunistic Data

Non-linear Iterative Partial Least Squares (NIPALS) algorithm

Phylogeny and trait of bacteria

Olympic Decathlon

Oribatid mite

Originality of a species

Orthonormal basis for orthonormal transform

A table of Qualitative Variables

Phylogenetic and quantitative traits of amazonian palm trees

Taxonomy and quantitative traits of carnivora

Principal component analysis with respect to instrumental variables

Principal Component Analysis with respect to orthogonal instrumental variables

Simplified Analysis in Principal Coordinates

Distribution of of tropical trees along the Panama canal

Contingency Table with a partition in Molecular Biology

Phylogeny

Plant traits response to grazing

Between-Class Analysis

Plot phylogenies

Within-Class Analysis

Results of the French presidential elections of 2002

Phylogeny and quantitative traits of birds

Simple Procruste Rotation between two sets of points

Monte-Carlo Test on the sum of the singular values of a procustean rotation (in C).

Monte-Carlo Test on the sum of the singular values of a procustean rotation (in R).

Partial Triadic Analysis of a K-tables

Transformation of a distance matrice to a Euclidean one

Bootstrap simulations

Bootstraped simulations for multiblock methods

Class of the Permutation Tests (in C).

Permutation tests on an analysis of molecular variance (in C).

Monte-Carlo Test on the between-groups inertia percentage (in C).

Monte-Carlo test on a Co-inertia analysis (in C).

Monte-Carlo Test on a Discriminant Analysis (in C).

Permutation test for double principal coordinate analysis (DPCoA)

Monte-Carlo Test on the percentage of explained (i.e. constrained) inertia

Two-fold cross-validation

Ordination Table

Reconstitution of Data from a Duality Diagram

Genetic structure of two nitrogen fixing bacteria influenced by geographical isolation and host specialization

Physico-Chemistry Data

RLQ analysis

Avifauna and Vegetation

Class of the Permutation Tests (in R).

Monte-Carlo Test on the between-groups inertia percentage (in R).

Monte-Carlo Test on a Discriminant Analysis (in R).

Plot of the factorial maps for the projection of a vector basis

Plot of the factorial maps with polygons of contour by level of a factor

Plot of factorial maps with representation of point classes

Plot of the factorial maps of a correlation circle

Plot of a frequency distribution

Display of a scatterplot and its two marginal histograms

Graph of a variable using image and contour

Scatter Plot with Kernel Density Estimate

Scatter Plot

Representation of an object in a graph by a picture

Plot of Paired Coordinates

Scatterplot of two sets of coordinates and a partionning into classes

Graph of frequency profiles (useful for instance in genetic)

Trajectory Plot

Representation of a value in a graph

Indirect Ordination

Array of Recapture of Rings

Compute or scale data using (weighted) means, variances and covariances (possibly for the levels of a factor)

Graphical representation of the outputs of a multivariate analysis

Plot of the factorial maps in a Multiple Correspondence Analysis

Plot of the factorial maps for a correspondence analysis

Plot of the Factorial Maps

Plot of the factorial maps for a fuzzy correspondence analysis

Graphical utility functions

Representation of the link between a variable and a set of qualitative variables

1D plot of a numeric score and a factor with labels

Representation by mean- standard deviation of a set of weight distributions on a numeric score

Relationships between one score and qualitative variables

1D plot of a numeric score with labels

1D plot of a pair of numeric scores with labels

Graph to Analyse the Relation between a Score and Quantitative Variables

Graphs for One Dimension

Graphs to study one factor in a Multiple Correspondence Analysis

Reciprocal scaling after a correspondence analysis

Graphs to Analyse a factor in a Mixed Analysis

Graphs to Analyse a factor in PCA

Students and Subjects

Separated Analyses in a K-tables

Morphometric Evolution

STATIS and Co-Inertia : Analysis of a series of paired ecological tables

Monte-Carlo test on a Statico analysis (in C).

STATIS, a method for analysing K-tables

Transect in the Vegetation

Projections of Supplementary Columns

Projection of additional items in a PCO analysis

Projections of Supplementary Rows

Projections of Supplementary Rows for a Partial Triadic Analysis of K-tables

Representation of a quantitative variable in front of a phylogenetic tree

Two Questions asked on a Sample of 1000 Respondents

Average temperatures of 30 French cities

Plot of Contingency Tables

Graph Display for Distance Matrices

Plot of the arrays by grey levels

Plot arrays in front of a phylogenetic tree

Plot of the Arrays

Mountain Avifauna

Examples of taxonomy

Function to perform a test of dimensionality

Selection of the number of dimension by two-fold cross-validation for multiblock methods

Tinto and Odiel estuary geochemistry

Phylogeny and quantitative traits of flowers

Morphological Study of the Painted Turtle

Homogeneous Table

Triangular Representation and Groups of points

Triangular Plotting

Pair of Ecological Data

Phylogeny and quantitative traits of ungulates.

Elimination of Duplicated Rows in a Array

The phylogenetic ANOVA

Partition of the variation of a response multivariate table by 2 explanatory tables

Vegetation in Trois-Fontaines

Example for Centring in PCA

Within-Class Analysis

Within-class coinertia analysis

Within-Class RLQ analysis

Freshwater fish zoogeography in west Africa

Normed within principal component analysis

Internal Correspondence Analysis

Plant assemblages in woodlands of the conurbation of Angers (France)

French Worker Survey (1970)

Distance Matrices

Road distances in New-Zealand