Rdocumentation
powered by
Learn R Programming
⚠️
There's a newer version (2.7-1) of this package.
Take me there.
vegan (version 1.17-4)
Community Ecology Package
Description
Ordination methods, diversity analysis and other functions for community and vegetation ecologists.
Copy Link
Link to current version
Version
Version
2.7-1
2.6-10
2.6-8
2.6-6.1
2.6-6
2.6-4
2.6-2
2.4-2
2.4-1
2.4-0
2.3-5
2.3-4
2.3-3
2.3-2
2.3-1
2.3-0
2.2-1
2.2-0
2.0-10
2.0-9
2.0-8
2.0-7
2.0-6
2.0-5
2.0-4
2.0-3
2.0-2
2.0-1
2.0-0
1.17-12
1.17-11
1.17-10
1.17-9
1.17-8
1.17-7
1.17-6
1.17-5
1.17-4
1.17-3
1.17-2
1.17-1
1.17-0
1.15-4
1.15-3
1.15-2
1.15-1
1.15-0
1.13-2
1.13-1
1.13-0
1.11-4
1.11-3
1.11-2
1.11-0
1.8-8
1.8-7
1.8-6
1.8-5
1.8-4
1.8-3
1.8-2
1.8-1
1.6-10
1.6-9
1.6-8
1.6-7
1.6-6
1.6-5
1.6-4
1.6-3
1.6-2
1.6-1
1.6-0
1.4-4
1.4-3
1.4-2
1.4-1
1.4-0
1.2-1
1.2-0
1.0-1
Install
install.packages('vegan')
Monthly Downloads
110,476
Version
1.17-4
License
GPL-2
Homepage
http://cran.r-project.org/
Maintainer
Jari Oksanen
Last Published
August 20th, 2010
Functions in vegan (1.17-4)
Search all functions
dune.taxon
Taxonomic Classification of Dune Meadow Species
diversity
Ecological Diversity Indices and Rarefaction Species Richness
BCI
Barro Colorado Island Tree Counts
orditkplot
Ordination Plot with Movable Labels
add1.cca
Add or Drop Single Terms to a Constrained Ordination Model
capscale
[Partial] Constrained Analysis of Principal Coordinates or distance-based RDA
anova.cca
Permutation Test for Constrained Correspondence Analysis, Redundancy Analysis and Constrained Analysis of Principal Coordinates
dune
Vegetation and Environment in Dutch Dune Meadows.
eigenvals
Extract Eigenvalues from an Ordination Object
mso
Functions for performing and displaying a spatial partitioning of cca or rda results
betadisper
Multivariate homogeneity of groups dispersions (variances)
goodness.metaMDS
Goodness of Fit and Shepard Plot for Nonmetric Multidimensional Scaling
ordiplot3d
Three-Dimensional and Dynamic Ordination Graphics
ordipointlabel
Ordination Plots with Points and Optimized Locations for Text
cascadeKM
K-means partitioning using a range of values of K
predict.cca
Prediction Tools for [Constrained] Ordination (CCA, RDA, DCA, CA, PCA)
tsallis
Tsallis Diversity and Corresponding Accumulation Curves
ordistep
Choose a Model by Permutation Tests in Constrained Ordination
kendall.global
Kendall coefficient of concordance
RsquareAdj
Adjusted R-square
anosim
Analysis of Similarities
ordiresids
Plots of Residuals and Fitted Values for Constrained Ordination
adonis
Permutational Multivariate Analysis of Variance Using Distance Matrices
ordisurf
Fit and Plot Smooth Surfaces of Variables on Ordination.
decostand
Standardization Methods for Community Ecology
mantel.correlog
Mantel Correlogram
adipart
Additive Diversity Partitioning and Hierarchical Null Model Testing
CCorA
Canonical Correlation Analysis
permuted.index2
Unrestricted and restricted permutations
ordiplot
Alternative plot and identify Functions for Ordination
contribdiv
Contribution Diversity Approach
dispindmorisita
Morisita index of intraspecific aggregation
mite
Oribatid Mite Data with Explanatory Variables
metaMDS
Nonmetric Multidimensional Scaling with Stable Solution from Random Starts, Axis Scaling and Species Scores
designdist
Design your own Dissimilarities
decorana
Detrended Correspondence Analysis and Basic Reciprocal Averaging
goodness.cca
Diagnostic Tools for [Constrained] Ordination (CCA, RDA, DCA, CA, PCA)
ordixyplot
Trellis (Lattice) Plots for Ordination
wascores
Weighted Averages Scores for Species
permat
Matrix Permutation Algorithms for Presence-Absence and Count Data
pcnm
Principal Coordinates of Neighbourhood Matrix
bgdispersal
Coefficients of Biogeographical Dispersal Direction
distconnected
Connectedness of Dissimilarities
envfit
Fits an Environmental Vector or Factor onto an Ordination
mantel
Mantel and Partial Mantel Tests for Dissimilarity Matrices
stepacross
Stepacross as Flexible Shortest Paths or Extended Dissimilarities
procrustes
Procrustes Rotation of Two Configurations and PROTEST
permCheck
Utility functions for permutation schemes
wcmdscale
Weighted Classical (Metric) Multidimensional Scaling
ordilabel
Add Text on Non-transparent Label to an Ordination Plot
screeplot.cca
Screeplots for Ordination Results and Broken Stick Distributions
vegdist
Dissimilarity Indices for Community Ecologists
varespec
Vegetation and environment in lichen pastures
taxondive
Indices of Taxonomic Diversity and Distinctness
betadiver
Indices of beta Diversity
rankindex
Compares Dissimilarity Indices for Gradient Detection
renyi
Renyi and Hill Diversities and Corresponding Accumulation Curves
oecosimu
Null Models for Biological Communities
cca
[Partial] [Constrained] Correspondence Analysis and Redundancy Analysis
permutest.betadisper
Permutation test of multivariate homogeneity of groups dispersions (variances)
cca.object
Result Object from Constrained Ordination with cca, rda or capscale
specpool
Extrapolated Species Richness in a Species Pool
vegan-internal
Internal vegan functions
varpart
Partition the Variation of Community Matrix by 2, 3, or 4 Explanatory Matrices
multipart
Multiplicative Diversity Partitioning
vegemite
Prints a Compact, Ordered Vegetation Table
scores
Get Species or Site Scores from an Ordination
specaccum
Species Accumulation Curves
indpower
Indicator Power of Species
humpfit
No-interaction Model for Hump-backed Species Richness vs. Biomass
orditorp
Add Text or Points to Ordination Plots
vegandocs
Display Package Documentation
isomap
Isometric Feature Mapping Ordination
prc
Principal Response Curves for Treatments with Repeated Observations
plot.cca
Plot or Extract Results of Constrained Correspondence Analysis or Redundancy Analysis
spantree
Minimum Spanning Tree
deviance.cca
Statistics Resembling Deviance and AIC for Constrained Ordination
simulate.rda
Simulate Responses with Gaussian Error for Redundancy Analysis
biplot.rda
PCA biplot
fisherfit
Fit Fisher's Logseries and Preston's Lognormal Model to Abundance Data
make.cepnames
Abbreviates a Botanical or Zoological Latin Name into an Eight-character Name
read.cep
Reads a CEP (Canoco) data file
ordihull
Add Graphical Items to Ordination Diagrams
sipoo
Birds in the Archipelago of Sipoo (Sibbo)
linestack
Plots One-dimensional Diagrams without Overwriting Labels
pyrifos
Response of Aquatic Invertebrates to Insecticide Treatment
permutations
Permutation tests in Vegan
radfit
Rank -- Abundance or Dominance / Diversity Models
mrpp
Multi Response Permutation Procedure and Mean Dissimilarity Matrix
MOStest
Mitchell-Olds & Shaw Test for the Location of Quadratic Extreme
beals
Beals Smoothing and Degree of Absence
treedive
Functional Diversity estimated from a Species Dendrogram
as.mlm.cca
Refit Constrained Ordination as a Multiple Response Linear Model
bioenv
Best Subset of Environmental Variables with Maximum (Rank) Correlation with Community Dissimilarities
model.matrix.cca
Reconstruct Model Frame and Model Matrices of Constrained Ordination
nestedtemp
Nestedness Indices for Communities of Islands or Patches