R: Phylogenetic analysis in R

phangorn-package {phangorn} | R Documentation

## Phylogenetic analysis in R

### Description

Phylogenetic analysis in R (Estimation of phylogenetic trees and networks using Maximum Likelihood, Maximum Parsimony, Distance methods & Hadamard conjugation)

### Details

The complete list of functions can be displayed with `library(help = phangorn)`.

Further information is available in several vignettes. To show the available vignettes in an HTML browser type `browseVignettes("phangorn")`.

`Trees` | Constructing phylogenetic trees (source, pdf)
`phangorn-specials` | Advanced features (source, pdf)
`Ancestral` | Ancestral sequence reconstruction (source, pdf)
`Networx` | Splits and Networx (source, html)

The first vignette (to display type `vignette('Trees')`) gives an introduction in phylogenetic analysis with phangorn. The second vignette (phangorn-special) covers more advanced feature like defining special character spaces and things which fit nowhere else. More information on phangorn can be found on http://www.phangorn.org.

### Author(s)

Klaus Schliep

Maintainer: Klaus Schliep <klaus.schliep@gmail.com>

### References

Schliep K.P. (2011) phangorn: Phylogenetic analysis in R. Bioinformatics, 27(4) 592-593

[Package phangorn version 2.3.1 Index]