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vegan (version 1.11-3)
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
121,787
Version
1.11-3
License
GPL-2
Homepage
http://cran.r-project.org/
Maintainer
Jari Oksanen
Last Published
January 29th, 2025
Functions in vegan (1.11-3)
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bioenv
Best Subset of Environmental Variables with Maximum (Rank) Correlation with Community Dissimilarities
capscale
[Partial] Constrained Analysis of Principal Coordinates or distance-based RDA
biplot.rda
PCA biplot
isomap
Isometric Feature Mapping Ordination
ordiplot
Alternative plot and identify Functions for Ordination
dune.taxon
Taxonomic Classification of Dune Meadow Species
betadisper
Multivariate homogeneity of groups dispersions (variances)
scores
Get Species or Site Scores from an Ordination
adonis
Multivariate Analysis of Variance Using Distance Matrices
radfit
Rank -- Abundance or Dominance / Diversity Models
ordihull
Add Graphical Items to Ordination Diagrams
make.cepnames
Abbreviates a Botanical or Zoological Latin Name into an Eight-character Name
metaMDS
Nonmetric Multidimensional Scaling with Stable Solution from Random Starts, Axis Scaling and Species Scores
decostand
Standardization Methods for Community Ecology
mite
Oribatid Mite Data with Explanatory Variables
varespec
Vegetation and environment in lichen pastures
ordiplot3d
Three-Dimensional and Dynamic Ordination Graphics
linestack
Plots One-dimensional Diagrams without Overwriting Labels
goodness.metaMDS
Goodness of Fit and Shepard Plot for Nonmetric Multidimensional Scaling
ordiresids
Plots of Residuals and Fitted Values for Constrained Ordination
deviance.cca
Statistics Resembling Deviance and AIC for Constrained Ordination
envfit
Fits an Environmental Vector or Factor onto an Ordination
humpfit
No-interaction Model for Hump-backed Species Richness vs. Biomass
cascadeKM
K-means partitioning using a range of values of K
cca
[Partial] [Constrained] Correspondence Analysis and Redundancy Analysis
oecosimu
Nestedness and Null Models for Islands or Patches
sipoo
Birds in the Archipelago of Sipoo (Sibbo)
ordixyplot
Trellis (Lattice) Plots for Ordination
specpool
Extrapolated Species Richness in a Species Pool
vegan-internal
Internal vegan functions
orditorp
Add Text or Points to Ordination Plots
CCorA
Canonical Correlation Analysis
vegandocs
Display Package Documentation
goodness.cca
Diagnostic Tools for [Constrained] Ordination (CCA, RDA, DCA, CA, PCA)
ordisurf
Fit and Plot Smooth Surfaces of Variables on Ordination.
rankindex
Compares Dissimilarity Indices for Gradient Detection
bgdispersal
Coefficients of Biogeographical Dispersal Direction
renyi
Renyi and Hill Diversities and Corresponding Accumulation Curves
dune
Vegetation and Environment in Dutch Dune Meadows.
procrustes
Procrustes Rotation of Two Configurations and PROTEST
distconnected
Connectedness of Dissimilarities
mantel
Mantel and Partial Mantel Tests for Dissimilarity Matrices
wascores
Weighted Averages Scores for Species
varpart
Partition the Variation of Community Matrix by 2, 3, or 4 Explanatory Matrices
mrpp
Multi Response Permutation Procedure of Within- versus Among-Group Dissimilarities
read.cep
Reads a CEP (Canoco) data file
fisherfit
Fit Fisher's Logseries and Preston's Lognormal Model to Abundance Data
pyrifos
Response of Aquatic Invertebrates to Insecticide Treatment
diversity
Ecological Diversity Indices and Rarefaction Species Richness
cca.object
Result Object from Constrained Ordination with cca, rda or capscale
specaccum
Species Accumulation Curves
stepacross
Stepacross as Flexible Shortest Paths or Extended Dissimilarities
beals
Beals Smoothing and Degree of Absence
orditkplot
Ordination Plot with Movable Labels
vegemite
Prints a Compact, Ordered Vegetation Table
decorana
Detrended Correspondence Analysis and Basic Reciprocal Averaging
plot.cca
Plot or Extract Results of Constrained Correspondence Analysis or Redundancy Analysis
prc
Principal Response Curves for Treatments with Repeated Observations
permuted.index2
Unrestricted and restricted permutations
BCI
Barro Colorado Island Tree Counts
anova.cca
Permutation Test for Constrained Correspondence Analysis, Redundancy Analysis and Constrained Analysis of Principal Coordinates
screeplot.cca
Screeplots for Ordination Results and Broken Stick Distributions
vegdist
Dissimilarity Indices for Community Ecologists
as.mlm.cca
Refit Constrained Ordination as a Multiple Response Linear Model
anosim
Analysis of Similarities
predict.cca
Prediction Tools for [Constrained] Ordination (CCA, RDA, DCA, CA, PCA)
permCheck
Utility functions for permutation schemes
spantree
Minimum Spanning Tree
designdist
Design your own Dissimilarities
taxondive
Indices of Taxonomic Diversity and Distinctness