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entropart (version 1.4-6)
Entropy Partitioning to Measure Diversity
Description
Measurement and partitioning of diversity, based on Tsallis entropy.
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Install
install.packages('entropart')
Monthly Downloads
694
Version
1.4-6
License
GNU General Public License
Maintainer
Eric Marcon
Last Published
December 9th, 2016
Functions in entropart (1.4-6)
Search functions
BetaDiversity
Reduced-bias beta diversity of a metacommunity
AlphaDiversity
Reduced-bias alpha diversity of a metacommunity
CommunityProfile
Diversity or Entropy Profile of a community
AbdFreqCount
Abundance Frequency Count of a Community
ArgumentOriginalName
Finds the original value (name of expression) of the argument of a function even in the case of embedded calls.
CheckentropartArguments
Checks the arguments of a function of the package entropart
ChaoPD
Phylogenetic Diversity of a Community
AllenH
Phylogenetic Entropy of a Community
BetaEntropy
Reduced-bias beta entropy of a metacommunity
AlphaEntropy
Reduced-bias alpha entropy of a metacommunity
DivProfile
Diversity Profile of a metacommunity
Coverage
Sample coverage of a community
Dqz
Similarity-based diversity of a community
Enq
Grassberger's expectation of n^q
EightSpAbundance
Abundances of 8 species to run examples.
entropart-package
Entropy Partitioning to Measure Diversity
EightSpTree
Functional tree with 8 species.
DivEst
Diversity Estimation of a metacommunity
Diversity
HCDT diversity of a community
DivPart
Diversity Partition of a metacommunity
EntropyCI
Entropy of Monte-Carlo simulated communities
expq
Exponential of order q
lnq
Logarithm of order q
GammaEntropy
Reduced-bias gamma entropy of a metacommunity
GammaDiversity
Reduced-bias gamma diversity of a metacommunity
HqzBeta
Similarity-based beta entropy of a community
KLq
Generalized Kullback-Leibler divergence
Hurlbert
Hurlbert's Index and Explicit Diversity
Hqz
Similarity-based entropy of a community
GenSimpson
Generalized Simpson's Entropy and Diversity
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.
MetaCommunity
Metacommunity class
mergeandlabel
Merge community data
Paracou618.Taxonomy
Taxonomy (Family - Genus - Species) of Paracou field station plots 6 and 18, two 1-ha plots inventoried by the Bridge project.
Paracou618.Functional
Functional tree of species of Paracou field station plots 6 and 18, two 1-ha plots inventoried by the Bridge project.
MCdiversity
Meta-Community diversity class.
MC Utilities
Manipulation of meta-communities
MCentropy
Meta-Community entropy class.
Optimal.Similarity
Optimal scale parameter to transform a distance matrix into a similarity matrix
Paracou618.MC
Paracou field station plots 6 and 18, two 1-ha plots inventoried by the Bridge project.
Preprocess.Tree
Preprocessing of a phylogenetic tree
Rao
Rao Quadratic Entropy of a Community
PhyloBetaEntropy
Phylogenetic Beta Entropy of a community
PhyloDiversity
Phylogenetic Diversity of a Community
PhyloApply
Apply a Function over a Phylogenetic Tree
PDFD
Phylogenetic Diversity / Functional Diversity of a Community
PhyloEntropy
Phylogenetic Entropy of a community
PhyloValue
Phylogenetic entropy of diversity.
PPtree
Preprocessed Trees.
SimTest
SimTest class
Preprocess.MC
Preprocessing of metacommunity data
Richness
Number of species of a community
SimpsonBeta
Simpson beta entropy of a community
Shannon
Shannon entropy of a community
SpeciesDistribution
Species Distributions.
ShannonBeta
Shannon beta entropy of a community
Simpson
Simpson entropy of a community
rCommunity
Random Communities
Tsallis
Tsallis (HCDT) Entropy of a community
TsallisBeta
Tsallis beta entropy of a community