README.md

In ms609/OReillyEtAl2016: Distance metrics for trees generated by O'Reilly et al. 2016

OReillyEtAl2016

This R package provides data and analyses that accompany the paper

• Martin R. Smith (2019), Bayesian and parsimony approaches reconstruct informative trees from simulated morphological datasets, Biological Letters, 15:20180632. doi:10.1098/rsbl.2018.0632

It incorporates data from:

• O’Reilly, J. E., M. N. Puttick, L. Parry, A. R. Tanner, J. E. Tarver, J. Fleming, D. Pisani, and P. C. J. Donoghue. 2016. Bayesian methods outperform parsimony but at the expense of precision in the estimation of phylogeny from discrete morphological data. Biology Letters, 12:20160081. doi:10.1098/rsbl.2016.0081.

• O’Reilly, J. E., M. N. Puttick, L. Parry, A. R. Tanner, J. E. Tarver, J. Fleming, D. Pisani, and P. C. J. Donoghue. 2016. Data from: Bayesian methods outperform parsimony but at the expense of precision in the estimation of phylogeny from discrete morphological data. Dryad Digital Repository, doi:10.5061/dryad.10qf3.

Equivalent data and analyses from data simulated by Congreve & Lamsdell (2016) are available at ms609.github.io/CongreveLamsdell2016.

The documentation has not yet been thoroughly checked for typographical errors; if you find any issues, paritcularly in the installation instructions, please let me know so I can address them.

Installation

Install the package in R with: devtools::install_github('ms609/OReillyEtAl2016').

Documentation

The package contains HTML and PDF files detailing how analyses were conducted, to facilitate reprodution of results.

The R data objects can be analysed using the code and procedures detailed for the analagous datasets at https://github.com/ms609/CongreveLamsdell2016.

ms609/OReillyEtAl2016 documentation built on March 3, 2024, 1:18 p.m.