CommEcol includes functions to perform recently proposed analyses in community ecology as well as analyses not easily available in other R packages. It is intended to be a complement to major R packages, particularly vegan.
The first release of CommEcol was early May 2013 and it is still in a development stage. That means that functions were not tested extensively and may produce errors. You can download CommEcol or install it using: install.packages("CommEcol", repos=c("http://r-forge.r-project.org", "http://cran-r.c3sl.ufpr.br"), dep=TRUE). See also the summary page at r-forge.
The
current version of CommEcol includes the functions:
==>
autosimi - AutoSimilarity curves.
==> compas - Simulated communities obtained from species response curves (Minchin 1987. Vegetatio 71:145-156).
==> dis.chao - Dissimilarity indices proposed by Chao et al. (2005) that takes into account (rare) unseen shared species.
==> dis.goodall - A probability-based Dissimilarity index in which rare species (or descriptors) are overweighted.
==> dis.nness - Dissimilarity indices that overweight rare species to a desired degree.
==> dis.nness.find.m - A procedure to find a m-value to be used in dis.nness() that is sensitive to both rare and abundant species.
==>
part.m.tree, part.p.tree - Multiple and pair-wise of Sorensen,
Jaccard as well as their turnover and richness-diference components
of dissimilarity adapted to tree objects representing resemblance of
descriptor variables
==> select.window - selection of
a site-by-species dataframe representing cells around a focal cell in
a gridded dataframe.
==>
standExtent - Standardization of spatial extent for two
metacommunities by subsampling.
==>
treeNodf, treeNodfTest -
Nestedness for phylogenetic, functional and other diversity metrics
based on resemblance of descriptor variables (Melo, Cianciaruso and
Almeida-Neto 2014.
Methods in Ecology and Evolution 5: 563-572).
==>
betaRegDisp -
Beta diversity metrics between sites in a moving window along environmental gradients (Dala-Corte et al. 2019.
Environmental Monitoring and Assessment 191:288).
Maintainer:
Adriano S.
Melo
Last update of this page: 03
May
2019