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PACo

This package implements the functions neeeded to perform PACo (Balbuena et al. 2013) in R.

Balbuena, Juan Antonio, Raúl Míguez-Lozano, and Isabel Blasco-Costa. “PACo: A Novel Procrustes Application to Cophylogenetic Analysis.” PLoS ONE 8, no. 4 (2013): e61048. doi:10.1371/journal.pone.0061048.

How to use

Have a look at the manual, ?PACo has a full example.

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Version

Install

install.packages('paco')

Monthly Downloads

243

Version

0.2.3

License

MIT + file LICENSE

Maintainer

Timothee Poisot

Last Published

November 10th, 2015

Functions in paco (0.2.3)

residuals.paco

Get procrustes residuals from a paco object

add_pcoord

Principle coordinate analysis of phylogenies

paco_links

Contribution of individual links

licetree

Lice phylogeny

PACo

Performs PACo/procustes analysis

gl_links

Gopher/lice phylogenies

coordpcoa

Internal fucntion of add_pcoord performing pricipal coordinate analysis

prepare_paco_data

Prepare the data Simple wrapper to make sure that the matrices are sorted accordingly

gophertree

Gopher phylogeny