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vegan (version 1.13-2)
Community Ecology Package
Description
Ordination methods, diversity analysis and other functions for community and vegetation ecologists.
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Install
install.packages('vegan')
Monthly Downloads
79,999
Version
1.13-2
License
GPL-2
Maintainer
Jari Oksanen
Last Published
June 6th, 2025
Functions in vegan (1.13-2)
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designdist
Design your own Dissimilarities
anova.cca
Permutation Test for Constrained Correspondence Analysis, Redundancy Analysis and Constrained Analysis of Principal Coordinates
dune.taxon
Taxonomic Classification of Dune Meadow Species
dune
Vegetation and Environment in Dutch Dune Meadows.
metaMDS
Nonmetric Multidimensional Scaling with Stable Solution from Random Starts, Axis Scaling and Species Scores
biplot.rda
PCA biplot
as.mlm.cca
Refit Constrained Ordination as a Multiple Response Linear Model
ordihull
Add Graphical Items to Ordination Diagrams
adonis
Permutational Multivariate Analysis of Variance Using Distance Matrices
decostand
Standardization Methods for Community Ecology
fisherfit
Fit Fisher's Logseries and Preston's Lognormal Model to Abundance Data
oecosimu
Nestedness and Null Models for Islands or Patches
bgdispersal
Coefficients of Biogeographical Dispersal Direction
cca.object
Result Object from Constrained Ordination with cca, rda or capscale
cca
[Partial] [Constrained] Correspondence Analysis and Redundancy Analysis
isomap
Isometric Feature Mapping Ordination
linestack
Plots One-dimensional Diagrams without Overwriting Labels
mite
Oribatid Mite Data with Explanatory Variables
humpfit
No-interaction Model for Hump-backed Species Richness vs. Biomass
beals
Beals Smoothing and Degree of Absence
mantel
Mantel and Partial Mantel Tests for Dissimilarity Matrices
ordisurf
Fit and Plot Smooth Surfaces of Variables on Ordination.
betadiver
Indices of beta Diversity
cascadeKM
K-means partitioning using a range of values of K
make.cepnames
Abbreviates a Botanical or Zoological Latin Name into an Eight-character Name
decorana
Detrended Correspondence Analysis and Basic Reciprocal Averaging
bioenv
Best Subset of Environmental Variables with Maximum (Rank) Correlation with Community Dissimilarities
ordiplot
Alternative plot and identify Functions for Ordination
permutest.betadisper
Permutation test of ultivariate homogeneity of groups dispersions (variances)
pyrifos
Response of Aquatic Invertebrates to Insecticide Treatment
plot.cca
Plot or Extract Results of Constrained Correspondence Analysis or Redundancy Analysis
spantree
Minimum Spanning Tree
screeplot.cca
Screeplots for Ordination Results and Broken Stick Distributions
stepacross
Stepacross as Flexible Shortest Paths or Extended Dissimilarities
sipoo
Birds in the Archipelago of Sipoo (Sibbo)
procrustes
Procrustes Rotation of Two Configurations and PROTEST
prc
Principal Response Curves for Treatments with Repeated Observations
specaccum
Species Accumulation Curves
orditkplot
Ordination Plot with Movable Labels
varpart
Partition the Variation of Community Matrix by 2, 3, or 4 Explanatory Matrices
rankindex
Compares Dissimilarity Indices for Gradient Detection
scores
Get Species or Site Scores from an Ordination
vegandocs
Display Package Documentation
vegan-internal
Internal vegan functions
renyi
Renyi and Hill Diversities and Corresponding Accumulation Curves
vegdist
Dissimilarity Indices for Community Ecologists
diversity
Ecological Diversity Indices and Rarefaction Species Richness
ordiplot3d
Three-Dimensional and Dynamic Ordination Graphics
anosim
Analysis of Similarities
predict.cca
Prediction Tools for [Constrained] Ordination (CCA, RDA, DCA, CA, PCA)
read.cep
Reads a CEP (Canoco) data file
wascores
Weighted Averages Scores for Species
taxondive
Indices of Taxonomic Diversity and Distinctness
capscale
[Partial] Constrained Analysis of Principal Coordinates or distance-based RDA
BCI
Barro Colorado Island Tree Counts
CCorA
Canonical Correlation Analysis
deviance.cca
Statistics Resembling Deviance and AIC for Constrained Ordination
permCheck
Utility functions for permutation schemes
distconnected
Connectedness of Dissimilarities
envfit
Fits an Environmental Vector or Factor onto an Ordination
orditorp
Add Text or Points to Ordination Plots
betadisper
Multivariate homogeneity of groups dispersions (variances)
goodness.cca
Diagnostic Tools for [Constrained] Ordination (CCA, RDA, DCA, CA, PCA)
goodness.metaMDS
Goodness of Fit and Shepard Plot for Nonmetric Multidimensional Scaling
mso
Functions for performing and displaying a spatial partitioning of cca or rda results
ordixyplot
Trellis (Lattice) Plots for Ordination
permuted.index2
Unrestricted and restricted permutations
vegemite
Prints a Compact, Ordered Vegetation Table
radfit
Rank -- Abundance or Dominance / Diversity Models
ordiresids
Plots of Residuals and Fitted Values for Constrained Ordination
specpool
Extrapolated Species Richness in a Species Pool
mrpp
Multi Response Permutation Procedure of Within- versus Among-Group Dissimilarities
varespec
Vegetation and environment in lichen pastures