- Home
- CRAN
**entropart**: Entropy Partitioning to Measure Diversity**Preprocess.Tree**: Preprocessing of a phylogenetic tree

# Preprocessing of a phylogenetic tree

### Description

Calculates cuts and intervals of a phylogenetic tree and make it available both in `hclust`

and `phylog`

formats.

### Usage

1 | ```
Preprocess.Tree(Tree)
``` |

### Arguments

`Tree` |
An object of class |

### Details

This is an internal function. It is used by `PhyloApply`

and to obtain values of intervals.

### Value

An object of class `PPtree`

.

### Author(s)

Eric Marcon <Eric.Marcon@ecofog.gf>

Want to suggest features or report bugs for rdrr.io? Use the GitHub issue tracker.

- AbdFreqCount: Abundance Frequency Count of a Community
- AllenH: Phylogenetic Entropy of a Community
- AlphaDiversity: Reduced-bias alpha diversity of a metacommunity
- AlphaEntropy: Reduced-bias alpha entropy of a metacommunity
- ArgumentOriginalName: Finds the original value (name of expression) of the argument...
- BetaDiversity: Reduced-bias beta diversity of a metacommunity
- BetaEntropy: Reduced-bias beta entropy of a metacommunity
- ChaoPD: Phylogenetic Diversity of a Community
- CheckentropartArguments: Checks the arguments of a function of the package entropart
- CommunityProfile: Diversity or Entropy Profile of a community
- Coverage: Sample coverage of a community
- Diversity: HCDT diversity of a community
- DivEst: Diversity Estimation of a metacommunity
- DivPart: Diversity Partition of a metacommunity
- DivProfile: Diversity Profile of a metacommunity
- Dqz: Similarity-based diversity of a community
- EightSpAbundance: Abundances of 8 species to run examples.
- EightSpTree: Functional tree with 8 species.
- Enq: Grassberger's expectation of n^q
- entropart-package: Entropy Partitioning to Measure Diversity
- EntropyCI: Entropy of Monte-Carlo simulated communities
- expq: Exponential of order q
- GammaDiversity: Reduced-bias gamma diversity of a metacommunity
- GammaEntropy: Reduced-bias gamma entropy of a metacommunity
- GenSimpson: Generalized Simpson's Entropy and Diversity
- Hqz: Similarity-based entropy of a community
- HqzBeta: Similarity-based beta entropy of a community
- Hurlbert: Hurlbert's Index and Explicit Diversity
- KLq: Generalized Kullback-Leibler divergence
- lnq: Logarithm of order q
- MCdiversity: Meta-Community diversity class.
- MCentropy: Meta-Community entropy class.
- mergeandlabel: Merge community data
- MergeMC: Manipulation of meta-communities
- MetaCommunity: Metacommunity class
- Optimal.Similarity: Optimal scale parameter to transform a distance matrix into a...
- Paracou618.dist: Functional distances between pairs of species of Paracou...
- Paracou618.Functional: Functional tree of species of Paracou field station plots 6...
- Paracou618.MC: Paracou field station plots 6 and 18, two 1-ha plots...
- Paracou618.Taxonomy: Taxonomy (Family - Genus - Species) of Paracou field station...
- PDFD: Phylogenetic Diversity / Functional Diversity of a Community
- PhyloApply: Apply a Function over a Phylogenetic Tree
- PhyloBetaEntropy: Phylogenetic Beta Entropy of a community
- PhyloDiversity: Phylogenetic Diversity of a Community
- PhyloEntropy: Phylogenetic Entropy of a community
- PhyloValue: Phylogenetic entropy of diversity.
- PPtree: Preprocessed Trees.
- Preprocess.MC: Preprocessing of metacommunity data
- Preprocess.Tree: Preprocessing of a phylogenetic tree
- Rao: Rao Quadratic Entropy of a Community
- rCommunity: Random Communities
- Richness: Number of species of a community
- Shannon: Shannon entropy of a community
- ShannonBeta: Shannon beta entropy of a community
- Simpson: Simpson entropy of a community
- SimpsonBeta: Simpson beta entropy of a community
- SimTest: SimTest class
- SpeciesDistribution: Species Distributions.
- Tsallis: Tsallis (HCDT) Entropy of a community
- TsallisBeta: Tsallis beta entropy of a community