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vegan (version 1.8-3)
Community Ecology Package
Description
Ordination methods and other useful functions for community and vegetation ecologists.
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Install
install.packages('vegan')
Monthly Downloads
121,787
Version
1.8-3
License
GPL2
Maintainer
Jari Oksanen
Last Published
January 29th, 2025
Functions in vegan (1.8-3)
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metaMDS
Nonmetric Multidimensional Scaling with Stable Solution from Random Starts, Axis Scaling and Species Scores
humpfit
No-interaction Model for Hump-backed Species Richness vs. Biomass
varpart
Partition the Variation of Community Matrix by 2, 3, or 4 Explanatory Matrices
goodness.cca
Diagnostic Tools for [Constrained] Ordination (CCA, RDA, DCA, CA, PCA)
specpool
Extrapolated Species Richness in a Species Pool
diversity
Ecological Diversity Indices and Rarefaction Species Richness
fisherfit
Fit Fisher's Logseries and Preston's Lognormal Model to Abundance Data
procrustes
Procrustes Rotation of Two Configurations
cca
[Partial] [Constrained] Correspondence Analysis and Redundancy Analysis
anosim
Analysis of Similarities
vegdist
Dissimilarity Indices for Community Ecologists
specaccum
Species Accumulation Curves
mrpp
Multi Response Permutation Procedure of Within- versus Among-Group Dissimilarities
BCI
Barro Colorado Island Tree Counts
vegan-internal
Internal vegan functions
cca.object
Result Object from Constrained Ordination with cca, rda or capscale
mantel
Mantel and Partial Mantel Tests for Dissimilarity Matrices
pyrifos
Response of Aquatic Invertebrates to Insecticide Treatment
distconnected
Connectedness of Dissimilarities
orditorp
Add Text or Points to Ordination Plots
linestack
Plots One-dimensional Diagrams without Overwriting Labels
radfit
Rank -- Abundance or Dominance / Diversity Models
stepacross
Stepacross as Flexible Shortest Paths or Extended Dissimilarities
spantree
Minimum Spanning Tree
ordiplot
Alternative plot and identify Functions for Ordination
vegandocs
Display Package Documentation
read.cep
Reads a CEP (Canoco) data file
make.cepnames
Abbreviates a Botanical or Zoological Latin Name into an Eight-character Name
scores
Get Species or Site Scores from an Ordination
ordiplot3d
Three-Dimensional and Dynamic Ordination Graphics
dune
Vegetation and Environment in Dutch Dune Meadows.
decostand
Standardizaton Methods for Community Ecology
anova.cca
Permutation Test for Constrained Correspondence Analysis, Redundancy Analysis and Constrained Analysis of Principal Coordinates
envfit
Fits an Environmental Vector or Factor onto an Ordination
wascores
Weighted Averages Scores for Species
prc
Principal Response Curves for Treatments with Repeated Observations
rankindex
Compares Dissimilarity Indices for Gradient Detection
mite
Oribatid Mite Data with Explanatory Variables
capscale
[Partial] Constrained Analysis of Principal Coordinates or distance-based RDA
beals
Beals Smoothing of Community Data
bioenv
Best Subset of Environmental Variables with Maximum (Rank) Correlation with Community Dissimilarities
ordisurf
Fit and Plot Smooth Surfaces of Variables on Ordination.
decorana
Detrended Correspondence Analysis and Basic Reciprocal Averaging
deviance.cca
Statistics Resembling Deviance and AIC for Constrained Ordination
vegemite
Prints a Compact, Ordered Vegetation Table
ordihull
Add Graphical Items to Ordination Diagrams
predict.cca
Prediction Tools for [Constrained] Ordination (CCA, RDA, DCA, CA, PCA)
plot.cca
Plot or Extract Results of Constrained Correspondence Analysis or Redundancy Analysis
goodness.metaMDS
Goodness of Fit and Shepard Plot for Nonmetric Multidimensional Scaling
varespec
Vegetation and environment in lichen pastures