https://github.com/dombennett/treeman

:deciduous_tree::man: An R package for manipulating phylogentic trees
https://github.com/dombennett/treeman

bioinformatics cran evolution phylogenetic-trees

Last synced: 9 days ago
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:deciduous_tree::man: An R package for manipulating phylogentic trees

• Host: GitHub
• URL: https://github.com/dombennett/treeman
• Owner: DomBennett
• License: gpl-2.0
• Created: 2015-12-02T15:52:07.000Z (almost 9 years ago)
• Default Branch: master
• Last Pushed: 2020-11-01T19:49:45.000Z (about 4 years ago)
• Last Synced: 2023-10-20T19:24:33.603Z (about 1 year ago)
• Topics: bioinformatics, cran, evolution, phylogenetic-trees
• Language: R
• Homepage: https://github.com/DomBennett/treeman/wiki
• Size: 4.88 MB
• Stars: 10
• Watchers: 3
• Forks: 2
• Open Issues: 1
• Metadata Files:
  • Readme: README.md
  • License: LICENSE.txt

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README

        
# treeman

[![Build Status](https://travis-ci.org/DomBennett/treeman.svg)](https://travis-ci.org/DomBennett/treeman)[![Coverage Status](https://coveralls.io/repos/DomBennett/treeman/badge.svg?branch=master&service=github)](https://coveralls.io/github/DomBennett/treeman?branch=master)[![CRAN downloads](http://cranlogs.r-pkg.org/badges/grand-total/treeman)](https://CRAN.R-project.org/package=treeman)[![Rdoc](http://www.rdocumentation.org/badges/version/treeman)](http://www.rdocumentation.org/packages/treeman) 

> An R package for manipulating phylogentic trees using an intuitive S4 class structure.

The `treeman` R package provides a `list` based class for encoding phylogenetic trees in R, making manipulating phylogenetic trees easier to code and more efficient to run. `treeman` is aimed to be fast, simple and intuitive.

**Installation**

With CRAN:

```r

install.packages('treeman')

```

Installing the development copy via GitHub

```r

library(devtools)

install_github('dombennett/treeman')

```

**Quick guide**

```r

# working with the TreeMan class

library(treeman)

?TreeMan  # check the documentation

tree <- randTree(10)  # generate a random tree of 10 tips

summary(tree)  # check key stats

tree["tips"]  # extract key stats

```

For more details check out the [wiki](https://github.com/DomBennett/treeman/wiki).

**Licence**

GPL-2

**Status**

Version 1.1 released.

**Reference**

Bennett, D.J., Sutton, M.D. & Turvey, S.T., 2017. treeman: an R package for efficient and intuitive manipulation of phylogenetic trees. *BMC Research Notes*, 10(1), p.30. [Available online](https://bmcresnotes.biomedcentral.com/articles/10.1186/s13104-016-2340-8)

**Author**

D.J. Bennett (*but I welcome pull requests!*)