simba: A Collection of functions for similarity analysis of vegetation data

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Besides functions for the calculation of similarity and multiple plot similarity measures with binary data (for instance presence/absence species data) the package contains some simple wrapper functions for reshaping species lists into matrices and vice versa and some other functions for further processing of similarity data (Mantel-like permutation procedures) as well as some other useful stuff for vegetation analysis.

Author
Gerald Jurasinski <gerald.jurasinski@uni-rostock.de>, with contributions from Vroni Retzer <vroni.retzer@gmx.de>
Date of publication
2012-12-05 11:28:33
Maintainer
Gerald Jurasinski <gerald.jurasinski@uni-rostock.de>
License
GPL (>= 2)
Version
0.3-5
URLs

View on CRAN

Man pages

abis
Vegetation and environmental data recorded in a Tundra...
ads.ternaries
Artificial data-set for studying the mathematical behavior of...
aslopect
Calculate similarity of plots based on slope aspect and...
bb2num
Transform Braun-Blanquet scale data to percentage cover...
bcoov
Calculate Bray-Curtis distance for only one variable
bernina
Repeated vegetation records from 7 Alpine summits of the...
boxes
Adaption of boxplot.n.
com.sim
Compare mean similarity between subsets of data
CqN
Probabilistic multiple-plot similarity indices following Chao...
diffmean
Calculate the difference in Mean between two vectors
diffmich
Calculate the difference in parameters of a Michaelis-Menten...
diffslope
Calculate the difference in slope or intercept of two...
direct
Obtain Direction Classes from Geographic Coordinates
dist.tmp
Calculate the distance between the instances or variables of...
hexgrid
Produces the nodes of an equidistant grid.
liste
Convert dist-objects and matrices to database format
mad
Make binary dummy variables out of a factor vector
makead
Create artificial data set (species matrix).
mama
A (convenience) wrapper function to make matrix from a...
occ.time
Track species occurrence
pcol
Permuted Correlation (on strata)
plot.mrpp
plot an mrpp-object
rin
Calculate multiple plot resemblance measures
sim
Calculate similarities for binary vegetation data
simbadocs
Display Package Documentation
simba-internal
Internal functions of the package simba that are usually not...
simba-package
Calculate similarity measures for binary data
sim.tmp
Calculate binary similarity in time
sim.yo
Calculate a binary similarity index you define.
symbol.size
Little helper function to obtain bubble plots with simple...
trudi
Calculate true diversity of any order

Files in this package

simba
simba/MD5
simba/R
simba/R/zzz.R
simba/R/trudi.R
simba/R/symbol.size.R
simba/R/sos.R
simba/R/simbadocs.R
simba/R/sim.yo.R
simba/R/sim.tmp.R
simba/R/sim.R
simba/R/rin.R
simba/R/print.permcor.R
simba/R/print.pclist.R
simba/R/print.occtmp.R
simba/R/print.dsl2.R
simba/R/print.dsl.R
simba/R/print.dmn.R
simba/R/print.diffmich.R
simba/R/print.cslist.R
simba/R/plot.mrpp.R
simba/R/plot.mantl.R
simba/R/plot.dsl.R
simba/R/plot.dmn.R
simba/R/plot.diffmich.R
simba/R/pcol.R
simba/R/occ.tmp.R
simba/R/occ.time.R
simba/R/mps.R
simba/R/mps.ave.R
simba/R/mpd.R
simba/R/mos.ft.R
simba/R/mos.f.R
simba/R/mantl.R
simba/R/mama.R
simba/R/makead.R
simba/R/mad.R
simba/R/liste.R
simba/R/hexgrid.R
simba/R/fitmich.R
simba/R/dist.tmp.R
simba/R/direct2.R
simba/R/direct.R
simba/R/diffslope2.R
simba/R/diffslope.R
simba/R/diffmich.R
simba/R/diffmean.R
simba/R/diffic.R
simba/R/CqNa.R
simba/R/CqN.R
simba/R/com.sim.R
simba/R/boxes.R
simba/R/bcoov.R
simba/R/bb2num.R
simba/R/batons2.R
simba/R/batons.R
simba/R/aslopect.R
simba/R/ads.R
simba/R/ads.hot.R
simba/R/ads.fbg.R
simba/NAMESPACE
simba/man
simba/man/trudi.Rd
simba/man/symbol.size.Rd
simba/man/simbadocs.Rd
simba/man/simba-package.Rd
simba/man/simba-internal.Rd
simba/man/sim.yo.Rd
simba/man/sim.tmp.Rd
simba/man/sim.Rd
simba/man/rin.Rd
simba/man/plot.mrpp.Rd
simba/man/pcol.Rd
simba/man/occ.time.Rd
simba/man/mama.Rd
simba/man/makead.Rd
simba/man/mad.Rd
simba/man/liste.Rd
simba/man/hexgrid.Rd
simba/man/dist.tmp.Rd
simba/man/direct.Rd
simba/man/diffslope.Rd
simba/man/diffmich.Rd
simba/man/diffmean.Rd
simba/man/CqN.Rd
simba/man/com.sim.Rd
simba/man/boxes.Rd
simba/man/bernina.Rd
simba/man/bcoov.Rd
simba/man/bb2num.Rd
simba/man/aslopect.Rd
simba/man/ads.ternaries.Rd
simba/man/abis.Rd
simba/inst
simba/inst/doc
simba/inst/doc/simba-manual.pdf
simba/inst/doc/mps-coefficients.pdf
simba/inst/ChangeLog
simba/DESCRIPTION
simba/data
simba/data/bernina.rda
simba/data/ads.ternaries.rda
simba/data/abis.rda