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labdsv (version 2.1-0)

Ordination and Multivariate Analysis for Ecology

Description

A variety of ordination and community analyses useful in analysis of data sets in community ecology. Includes many of the common ordination methods, with graphical routines to facilitate their interpretation, as well as several novel analyses.

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Version

Install

install.packages('labdsv')

Monthly Downloads

2,653

Version

2.1-0

License

GPL (>= 2)

Maintainer

David Roberts

Last Published

April 10th, 2023

Functions in labdsv (2.1-0)

defactorize

Change Factors in Data.frames to Character Vectors
disana

Dissimilarity Analysis
dropspc

Dropping Species with Few Occurrences
dematrify

Create Three Column Database Form Data Frame from Sparse Data Frames
dropplt

Dropping Plots with Missing Values From Taxon and Site Data Frames
dga

Direct Gradient Analysis
dsvdis

Dissimilarity Indices and Distance Measures
convex

Convex Data Transformation
dsvls

LabDSV Object ls() Command
envrtest

Environmental Distribution Test
factorize

Change Character Vectors in Data.frames to Factors
importance

Importance Table
isamic

Indicator Species Analysis Minimizing Intermediate Occurrences
matrify

Create Taxon Data.frames From Three Column Database Form
labdsv.internal

LabDSV Internal Functions
euclidify

Nearest Euclidean Space Representation of a Dissimilarity Object
indval

Dufrene-Legendre Indicator Species Analysis
gsr

Global Search and Replace for Data.frames
homoteneity

Homoteneity Analysis of Classified Ecological Communities
hellinger

Hellinger Data Transformation
metrify

Nearest Metric Space Representation of a Dissimilarity Object
ordcomp

Ordination to Dissimilarity Comparison
neighbors

Neighbors
orddist

Ordination Point Pair-Wise Distance Calculation
pca

Principal Components Analysis
ordtest

Ordination Distribution Test
rnddist

Random Distance
raretaxa

Identify Rare Taxa in a Data Set
predict

Predict species abundances in an ordination
samptot

Sample total standardization
ordpart

Ordination Partitioning
ordneighbors

Nearest Neighbors Plotted in Ordination Space
vegtab

Vegetation Table
rndcomm

Randomize a Community Data.Frame
reconcile

Reconcile Community and Site Data.Frames
tsne

t-Distributed Stochastic Neighbor Embedding
ordcomm

Re-Order the Rows and Columns of a Taxon Data Frame
plot.thull

Plotting a Tensioned Hull
pco

Principal Coordinates Analysis
plot.dsvord

Plotting Routines For LabDSV Ordinations
nmds

Nonmetric Multidimensional Scaling
spcmax

Species Maximum Standardization
spcdisc

Species Discrimination Analysis
stepdist

Step-Across Distance
as.dsvord

Convert existing and external ordinations to dsv format
ccm

Community Composition Modeling
bryceveg

Bryce Canyon Vegetation Data
brycesite

Site Data for Bryce Canyon National Park
compspec

Compositional Specificity Analysis
calibrate

Calculate fitted environmental attributes in an ordination
abuocc

Abundance/Occurrence Graphical Analysis
abundtrans

Species Abundance Data Transformation
const

Constancy Table
concov

Constancy-Coverage Table for Ecological Community Data