R: Ordination and Multivariate Analysis for Ecology

# Ordination and Multivariate Analysis for Ecology

## Documentation for package ‘labdsv’ version 2.1-2

- DESCRIPTION file.

## Help Pages

abundtrans | Species Abundance Data Transformation
abuocc | Abundance/Occurrence Graphical Analysis
as.dsvord | Convert existing and external ordinations to dsv format
as.euclidean | Nearest Euclidean Space Representation of a Dissimilarity Object
as.metric | Nearest Metric Space Representation of a Dissimilarity Object
bestnmds | Nonmetric Multidimensional Scaling
besttsne | t-Distributed Stochastic Neighbor Embedding
brycesite | Site Data for Bryce Canyon National Park
bryceveg | Bryce Canyon Vegetation Data
calibrate | Calculate fitted environmental attributes in an ordination
calibrate.dsvord | Calculate fitted environmental attributes in an ordination
ccm | Community Composition Modeling
chullord.dsvord | Plotting Routines For LabDSV Ordinations
compspec | Compositional Specificity Analysis
concov | Constancy-Coverage Table for Ecological Community Data
const | Constancy Table
convex | Convex Data Transformation
defactorize | Change Factors in Data.frames to Character Vectors
dematrify | Create Three Column Database Form Data Frame from Sparse Data Frames
density.dsvord | Plotting Routines For LabDSV Ordinations
dga | Direct Gradient Analysis
disana | Dissimilarity Analysis
dropplt | Dropping Plots with Missing Values From Taxon and Site Data Frames
dropspc | Dropping Species with Few Occurrences
dsvdis | Dissimilarity Indices and Distance Measures
dsvls | LabDSV Object ls() Command
duarm | Indicator Species Analysis Minimizing Intermediate Occurrences
duleg | Dufrene-Legendre Indicator Species Analysis
ellip | Plotting Routines For LabDSV Ordinations
ellip.dsvord | Plotting Routines For LabDSV Ordinations
envrtest | Environmental Distribution Test
euclidify | Nearest Euclidean Space Representation of a Dissimilarity Object
factorize | Change Character Vectors in Data.frames to Factors
gsr | Global Search and Replace for Data.frames
hellinger | Hellinger Data Transformation
hilight.dsvord | Plotting Routines For LabDSV Ordinations
homoteneity | Homoteneity Analysis of Classified Ecological Communities
importance | Importance Table
importance.default | Importance Table
indspc | Compositional Specificity Analysis
indval | Dufrene-Legendre Indicator Species Analysis
indval.default | Dufrene-Legendre Indicator Species Analysis
indval.stride | Dufrene-Legendre Indicator Species Analysis
is.metric | Nearest Metric Space Representation of a Dissimilarity Object
isamic | Indicator Species Analysis Minimizing Intermediate Occurrences
loadings | Principal Components Analysis
loadings.pca | Principal Components Analysis
matrify | Create Taxon Data.frames From Three Column Database Form
metrify | Nearest Metric Space Representation of a Dissimilarity Object
neighbors | Neighbors
nmds | Nonmetric Multidimensional Scaling
ordcomm | Re-Order the Rows and Columns of a Taxon Data Frame
ordcomp | Ordination to Dissimilarity Comparison
orddist | Ordination Point Pair-Wise Distance Calculation
ordneighbors | Nearest Neighbors Plotted in Ordination Space
ordpart | Ordination Partitioning
ordpart.dsvord | Ordination Partitioning
ordpart.nmds | Ordination Partitioning
ordpart.pca | Ordination Partitioning
ordpart.pco | Ordination Partitioning
ordtest | Ordination Distribution Test
pca | Principal Components Analysis
pco | Principal Coordinates Analysis
plot.compspec | Compositional Specificity Analysis
plot.dsvord | Plotting Routines For LabDSV Ordinations
plot.thull | Plotting a Tensioned Hull
plotid.dsvord | Plotting Routines For LabDSV Ordinations
points.dsvord | Plotting Routines For LabDSV Ordinations
predict | Predict species abundances in an ordination
predict.dsvord | Predict species abundances in an ordination
raretaxa | Identify Rare Taxa in a Data Set
reconcile | Reconcile Community and Site Data.Frames
rndcomm | Randomize a Community Data.Frame
rnddist | Random Distance
rndtaxa | Randomize a Community Data.Frame
samptot | Sample total standardization
scores | Principal Components Analysis
scores.pca | Principal Components Analysis
spcdisc | Species Discrimination Analysis
spcmax | Species Maximum Standardization
stepdist | Step-Across Distance
summary | Principal Components Analysis
summary.indval | Dufrene-Legendre Indicator Species Analysis
summary.pca | Principal Components Analysis
surf.dsvord | Plotting Routines For LabDSV Ordinations
thull | Plotting a Tensioned Hull
thull.dsvord | Plotting Routines For LabDSV Ordinations
tsne | t-Distributed Stochastic Neighbor Embedding
varplot | Principal Components Analysis
varplot.pca | Principal Components Analysis
vegtab | Vegetation Table