Package: vegclust 2.0.2

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_2.0.2.tar.gz
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vegclust_2.0.2.tgz(r-4.5-any)vegclust_2.0.2.tgz(r-4.4-any)vegclust_2.0.2.tgz(r-4.3-any)
vegclust_2.0.2.tar.gz(r-4.5-noble)vegclust_2.0.2.tar.gz(r-4.4-noble)
vegclust_2.0.2.tgz(r-4.4-emscripten)vegclust_2.0.2.tgz(r-4.3-emscripten)
vegclust.pdf |vegclust.html
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 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

On CRAN:

Conda:

6.27 score 2 stars 6 packages 52 scripts 850 downloads 1 mentions 40 exports 8 dependencies

Last updated 8 months agofrom:5f6be430de. Checks:3 OK, 6 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 21 2025
R-4.5-winNOTEMar 21 2025
R-4.5-macNOTEMar 21 2025
R-4.5-linuxNOTEMar 21 2025
R-4.4-winNOTEMar 21 2025
R-4.4-macNOTEMar 21 2025
R-4.4-linuxNOTEMar 21 2025
R-4.3-winOKMar 21 2025
R-4.3-macOKMar 21 2025

Exports:as.membas.stratifiedvegdataas.vegclustCAPCAP2matrixCAPcentersCAPquantileCASCAS2matrixCAScentersCASmarginCASquantileclustcentroidclustconstclustmedoidclustvarconcordanceconformvegcrossmembdefuzzifyhcrhier.vegclusthier.vegclustdistincr.vegclustinterclustdistplot.CAPplot.CASplot.mvegclustplot.stratifiedvegdatarandom.vegclustrandom.vegclustdistrelate.levelsstratifyvegdatasummary.clustconstvegclassvegclustvegclust2kmeansvegclustdistvegclustIndexvegdiststruct

Dependencies:clusterlatticeMASSMatrixmgcvnlmepermutevegan

Describing vegetation in terms of structure and composition

Rendered fromMedRegExample.Rmdusingknitr::rmarkdownon Mar 21 2025.

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

How to use the vegclust package

Rendered fromVegetationClassification.Rmdusingknitr::rmarkdownon Mar 21 2025.

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

Readme and manuals

Help Manual

Help pageTopics
Fuzzy Clustering of Vegetation Data Functions for fuzzy and hard clustering of vegetation datavegclust-package
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
Calculates the 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 results.relate.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
Compute fuzzy evaluation statisticsvegclustIndex
Structural and compositional dissimilarityvegdiststruct
Wetland vegetation data setwetland