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entropart (version 1.2.0)

Entropy partitioning to measure diversity

Description

Measurement and partitioning of diversity, based on Tsallis entropy.

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Version

Install

install.packages('entropart')

Monthly Downloads

615

Version

1.2.0

License

GNU General Public License

Maintainer

Eric Marcon

Last Published

May 17th, 2014

Functions in entropart (1.2.0)

ChaoPD

Phylogenetic Diversity of a Community
EightSpTree

Functional tree with 8 species.
Dqz

Similarity-based diversity of a community
BetaDiversity

Unbiased beta diversity of a metacommunity
mergeandlabel

Merge community data
PPtree

Preprocessed Trees.
Paracou618.Taxonomy

Taxonomy (Family - Genus - Species) of Paracou field station plots 6 and 18, two 1-ha plots inventoried by the Bridge project.
DivProfile

Diversity Profile of a metacommunity
Simpson

Simpson entropy of a community
expq

Exponential of order q
GammaEntropy

Unbiased gamma entropy of a metacommunity
SimpsonBeta

Simpson beta entropy of a community
AlphaDiversity

Unbiased alpha diversity of a metacommunity
PhyloEntropy

Phylogenetic Entropy of a community
PhyloApply

Apply a Function over a Phylogenetic Tree
TsallisBeta

Tsallis beta entropy of a community
EntropyCI

Entropy of Monte-Carlo simulated communities
Diversity

Generalized diversity of a community
EightSpAbundance

Abundances of 8 species to run examples.
entropart-package

Entropy partitioning to measure diversity
Paracou618.MC

Paracou field station plots 6 and 18, two 1-ha plots inventoried by the Bridge project.
ShannonBeta

Shannon beta entropy of a community
MC Utilities

Manipulation of meta-communities
Shannon

Shannon entropy of a community
AllenH

Phylogenetic Entropy of a Community
Hqz

Similarity-based entropy of a community
plot.PhyloValue

Plot phylogenetic entropy of diversity.
SimTest

SimTest class
Coverage

Sample coverage of a community
PhyloDiversity

Phylogenetic Diversity of a Community
Rao

Rao Quadratic Entropy of a Community
Paracou618.Functional

Functional tree of species of Paracou field station plots 6 and 18, two 1-ha plots inventoried by the Bridge project.
KLq

Generalized Kullback-Leibler divergence
DivPart

Diversity Partition of a metacommunity
Enq

Grassberger's expectation of n^q
PDFD

Phylogenetic Diversity / Functional Diversity of a Community
MCdiversity

Meta-Community diversity class.
MetaCommunity

Metacommunity class
Originality.Species

Originality of species
lnq

Logarithm of order q
CommunityProfile

Diversity or Entropy Profile of a community
Richness

Simpson entropy of a community
CheckentropartArguments

Checks the arguments of a function of the package entropart
Preprocess.MC

Preprocessing of metacommunity data
Paracou618.dist

Functional distances between pairs of species of Paracou field station plots 6 and 18, two 1-ha plots inventoried by the Bridge project.
Preprocess.Tree

Preprocessing of a phylogenetic tree
MCentropy

Meta-Community entropy class.
AlphaEntropy

Unbiased alpha entropy of a metacommunity
DivEst

Diversity Estimation of a metacommunity
HqzBeta

Similarity-based beta entropy of a community
BetaEntropy

Unbiased beta entropy of a metacommunity
GammaDiversity

Unbiased gamma diversity of a metacommunity
PhyloBetaEntropy

Phylogenetic Beta Entropy of a community
Tsallis

Tsallis Entropy of a community