Package: vegclust 2.0.3

Miquel De Cáceres

vegclust: Fuzzy Clustering of Vegetation Data

A set of functions to: (1) perform fuzzy clustering of vegetation data (De Caceres et al, 2010) <doi:10.1111/j.1654-1103.2010.01211.x>; (2) to assess ecological community similarity on the basis of structure and composition (De Caceres et al, 2013) <doi:10.1111/2041-210X.12116>.

Authors:Miquel De Cáceres [aut, cre]

vegclust_2.0.3.tar.gz
vegclust_2.0.3.zip(r-4.7)vegclust_2.0.3.zip(r-4.6)vegclust_2.0.3.zip(r-4.5)
vegclust_2.0.3.tgz(r-4.6-any)vegclust_2.0.3.tgz(r-4.5-any)
vegclust_2.0.3.tar.gz(r-4.7-any)vegclust_2.0.3.tar.gz(r-4.6-any)
vegclust_2.0.3.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
vegclust/json (API)
NEWS

# Install 'vegclust' in R:
install.packages('vegclust', repos = c('https://emf-creaf.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/emf-creaf/vegclust/issues

Pkgdown/docs site:https://emf-creaf.github.io

Datasets:
  • medreg - Regeneration of Mediterranean vegetation data set
  • treedata - Synthetic vegetation data set with tree data
  • wetland - Wetland vegetation data set Vegetation of the Adelaide river alluvial plain (Australia). This data set was published by Bowman & Wilson (1987) and used in Dale (1988) to compare fuzzy classification approaches.

On CRAN:

Conda:

6.87 score 2 stars 7 packages 67 scripts 1.3k downloads 1 mentions 35 exports 8 dependencies

Last updated from:59a4b4d59c. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK146
source / vignettesOK199
linux-release-x86_64OK143
macos-release-arm64OK132
macos-oldrel-arm64OK88
windows-develOK120
windows-releaseOK110
windows-oldrelOK92
wasm-releaseOK95

Exports:as.membas.stratifiedvegdataas.vegclustCAPCAP2matrixCAPcentersCAPquantileCASCAS2matrixCAScentersCASmarginCASquantileclustcentroidclustconstclustmedoidclustvarconcordanceconformvegcrossmembdefuzzifyhcrhier.vegclusthier.vegclustdistincr.vegclustinterclustdistrandom.vegclustrandom.vegclustdistrelate.levelsstratifyvegdatavegclassvegclustvegclust2kmeansvegclustdistvegclustIndexvegdiststruct

Dependencies:clusterlatticeMASSMatrixmgcvnlmepermutevegan

Describing vegetation in terms of structure and composition

Miquel De Cáceres

Rendered fromMedRegExample.Rmdusingknitr::rmarkdownon May 14 2026.

Last update: 2020-06-10
Started: 2018-05-03

How to use the vegclust package

Miquel De Cáceres, CREAF, Barcelona, Spain, Susan Wiser, Landcare Research, Lincoln, New Zealand

Rendered fromVegetationClassification.Rmdusingknitr::rmarkdownon May 14 2026.

Last update: 2021-06-08
Started: 2021-06-04

Readme and manuals

Help Manual

Help pageTopics
Turns into membership matrixas.memb
Turns into vegclust objectsas.vegclust
Cumulative abundance profile (CAP)CAP CAP2matrix CAPcenters CAPquantile
Cumulative abundance surface (CAS)CAS CAS2matrix CAScenters CASmargin CASquantile
Cluster centers of a classificationclustcentroid clustmedoid
Constancy table of a classificationclustconst summary.clustconst
Cluster varianceclustvar
Concordance between two classificationsconcordance
Conform two community data tablesconformveg
Cross-table of two fuzzy classificationscrossmemb
Defuzzifies a fuzzy partitiondefuzzify
Heterogeneity-constrained random resampling (HCR)hcr
Clustering with several number of clustershier.vegclust hier.vegclustdist random.vegclust random.vegclustdist
Noise clustering with increasing number of clustersincr.vegclust
Distance between pairs of cluster centroidsinterclustdist
Regeneration of Mediterranean vegetation data setmedreg
Draws cummulative abundance profilesplot.CAP plot.stratifiedvegdata
Draws a cummulative abundance surfaceplot.CAS
Plots clustering resultsplot.mvegclust
Relates two clustering level resultsrelate.levels
Reshapes community data from individual into stratified formas.stratifiedvegdata stratifyvegdata
Synthetic vegetation data set with tree datatreedata
Classifies vegetation communitiesvegclass
Vegetation clustering methodsvegclust vegclustdist
Reshapes as kmeans objectvegclust2kmeans
Fuzzy evaluation statisticsvegclustIndex
Structural and compositional dissimilarityvegdiststruct
Wetland vegetation data set Vegetation of the Adelaide river alluvial plain (Australia). This data set was published by Bowman & Wilson (1987) and used in Dale (1988) to compare fuzzy classification approaches.wetland