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https://github.com/ms609/tci

R package to calculate the Total Cophenetic Index of Mir et al. 2013
https://github.com/ms609/tci

Last synced: 7 days ago
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R package to calculate the Total Cophenetic Index of Mir et al. 2013

Host: GitHub
URL: https://github.com/ms609/tci
Owner: ms609
Created: 2016-03-23T10:08:18.000Z (almost 9 years ago)
Default Branch: master
Last Pushed: 2021-06-23T18:14:41.000Z (over 3 years ago)
Last Synced: 2024-12-23T21:13:57.566Z (27 days ago)
Language: R
Homepage:
Size: 45.9 KB
Stars: 0
Watchers: 3
Forks: 0
Open Issues: 0
Metadata Files:
- Readme: README.md

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README

        [![CRAN Status Badge](https://www.r-pkg.org/badges/version/TotalCopheneticIndex)](https://cran.r-project.org/package=TotalCopheneticIndex)

[![CRAN Downloads](https://cranlogs.r-pkg.org/badges/TotalCopheneticIndex)](https://cran.r-project.org/package=TotalCopheneticIndex)

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# TotalCopheneticIndex

R package implementing the Total Cophenetic Index measure of Mir _et al._ (2013).

This package is now simply a wrapper for the function `TotalCopheneticIndex()`

in the package '[TreeTools](https://ms609.github.io/TreeTools/)'.

The total cophenetic index describes how balanced a phylogenetic tree is,

by measuring the how deep the most recent common ancestor of each pair of leaves

lies within the tree.

# See also

This functionality is now available via the function [`TotalCopheneticIndex()`](https://ms609.github.io/TreeTools/reference/TotalCopheneticIndex.html) in the

'[TreeTools](https://ms609.github.io/TreeTools/)' package, and via Rotger's

(unmaintained?) package 

'[CollessLike](https://github.com/LuciaRotger/CollessLike)'.

# References

A. Mir, F. Rossello, L. A. Rotger, A new balance index for phylogenetic trees.

  _Math. Biosci._ 241, 125-136 (2013).