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simba (version 0.3-5)

A Collection of functions for similarity analysis of vegetation data

Description

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.

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Version

Install

install.packages('simba')

Monthly Downloads

9

Version

0.3-5

License

GPL (>= 2)

Maintainer

Gerald Jurasinski

Last Published

December 5th, 2012

Functions in simba (0.3-5)

com.sim

Compare mean similarity between subsets of data
diffmich

Calculate the difference in parameters of a Michaelis-Menten kinetik fitted to (PAM) data
pcol

Permuted Correlation (on strata)
dist.tmp

Calculate the distance between the instances or variables of two similar data-sets.
CqN

Probabilistic multiple-plot similarity indices following Chao et al. (2008). Strictly preliminary.
symbol.size

Little helper function to obtain bubble plots with simple plot and points methods
abis

Vegetation and environmental data recorded in a Tundra ecosystem in Northern Sweden (Southeast of Abisko).
aslopect

Calculate similarity of plots based on slope aspect and inclination
sim.yo

Calculate a binary similarity index you define.
bcoov

Calculate Bray-Curtis distance for only one variable
trudi

Calculate true diversity of any order
bb2num

Transform Braun-Blanquet scale data to percentage cover values and vice versa
direct

Obtain Direction Classes from Geographic Coordinates
simba-internal

Internal functions of the package simba that are usually not called (or only implicitly) by the user
makead

Create artificial data set (species matrix).
diffslope

Calculate the difference in slope or intercept of two regression lines
plot.mrpp

plot an mrpp-object
diffmean

Calculate the difference in Mean between two vectors
sim

Calculate similarities for binary vegetation data
ads.ternaries

Artificial data-set for studying the mathematical behavior of asymmetric similarity coefficients
sim.tmp

Calculate binary similarity in time
occ.time

Track species occurrence
mad

Make binary dummy variables out of a factor vector
hexgrid

Produces the nodes of an equidistant grid.
boxes

Adaption of boxplot.n.
bernina

Repeated vegetation records from 7 Alpine summits of the Bernina range.
mama

A (convenience) wrapper function to make matrix from a data.frame
simbadocs

Display Package Documentation
simba-package

Calculate similarity measures for binary data
liste

Convert dist-objects and matrices to database format
rin

Calculate multiple plot resemblance measures