# Multivariate Multiscale Spatial Analysis

## Documentation for package ‘adespatial’ version 0.3-23

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

aem | Construct asymmetric eigenvector maps (AEM)
aem.build.binary | Construct a site-by-edge binary matrix
aem.time | AEM for time series
aem.weight.edges | Weight edges when constructing AEM variables
aem.weight.time | Weight edges when constructing AEM variables
bacProdxy | Bacterial production data set
beta.div | Beta diversity computed as Var(Y)
beta.div.comp | Decompose D in replacement and richness difference components
chooseCN | Function to choose a connection network
constr.hclust | Space- And Time-Constrained Clustering
constr.hclust-class | Class For Constrained Hiereachical Clustering
Cperiodogram | Contingency periodogram
create.dbMEM.model | Combine dbMEM matrices corresponding to groups of sites
dbmem | dbMEM spatial eigenfunctions
directional.response | Directional indices of community change
dist.ldc | Dissimilarity matrices for community composition data
envspace.test | Perform a test of the shared space-environment fraction of a variation partitioning using torus-translation (TT) or Moran Spectral Randomisation (MSR)
forward.sel | Forward selection with multivariate Y using permutation under reducel model
forward.sel.par | Parametric forward selection of explanatory variables in regression and RDA
give.thresh | Compute the maximum distance of the minimum spanning tree based on a distance matrix
global.rtest | Global and local tests
LCBD.comp | Compute LCBD from any D matrix
listw.candidates | Function to create a list of spatial weighting matrices
listw.explore | Interactive tool to generate R code that creates a spatial weighting matrix
listw.select | Function to optimize the selection of a spatial weighting matrix and select the best subset of eigenvectors (MEM, Moran's Eigenvector Maps)
local.rtest | Global and local tests
mastigouche | Mastigouche Lake network data set
mem | Function to compute and manage Moran's Eigenvector Maps (MEM) of a listw object
mem.select | Selection of the best subset of spatial eigenvectors (MEM, Moran's Eigenvector Maps)
mfpa | Multi-frequential periodogram analysis
moran.bounds | Function to compute extreme values of Moran's I
moran.randtest | Function to compute Moran's index of spatial autocorrelation
moranNP.randtest | Function to compute positive and negative parts of Moran's index of spatial autocorrelation
mspa | Multi-Scale Pattern Analysis
msr | Moran spectral randomization
msr.4thcorner | Moran spectral randomization for fourth-corner analysis
msr.default | Moran spectral randomization
msr.mantelrtest | Moran spectral randomization for Mantel test
msr.varipart | Moran spectral randomization for variation partitioning
mst.nb | Function to compute neighborhood based on the minimum spanning tree
multispati | Multivariate spatial analysis
ortho.AIC | Compute AIC for models with orthonormal explanatory variables
orthobasis.listw | Function to compute and manage Moran's Eigenvector Maps (MEM) of a listw object
orthobasis.poly | Function to compute polynomial of geographical coordinates
plot.constr.hclust | Plotting Method For Space- And Time-Constrained Clustering
plot.mfpa | Multi-frequential periodogram analysis
plot.multispati | Multivariate spatial analysis
plot.orthobasisSp | Function to display Moran's Eigenvector Maps (MEM) and other spatial orthogonal bases
plot.scalogram | Function to compute a scalogram
plot.TBI | Plots of the outputs of a temporal beta diversity analysis
plot.WRperio | Whittaker-Robinson periodogram
print.mfpa | Multi-frequential periodogram analysis
print.mspa | Multi-Scale Pattern Analysis
print.multispati | Multivariate spatial analysis
quicksti | Space-time interaction in ANOVA without replication
rotation | Rotate a set of point by a certain angle
scalogram | Function to compute a scalogram
scatter.mspa | Multi-Scale Pattern Analysis
scores.listw | Function to compute and manage Moran's Eigenvector Maps (MEM) of a listw object
ScotchWhiskey | Scotch Whiskey Data Set
stimodels | Space-time interaction in ANOVA without replication
summary.multispati | Multivariate spatial analysis
TBI | TBI: Difference between multivariate observations at T1 and T2
test.W | Function to compute and test eigenvectors of spatial weighting matrices
Tiahura | Tiahura Transect Fish Data Set
tpaired.krandtest | Paired t-tests of differences between T1 and T2 for each species
tpaired.randtest | Permutational paired t-test
trichoptera | Trichoptera data set
variogmultiv | Function to compute multivariate empirical variogram
WRperiodogram | Whittaker-Robinson periodogram
[.orthobasisSp | Function to compute and manage Moran's Eigenvector Maps (MEM) of a listw object