castor: Efficient Phylogenetics on Large Trees

Efficient tree manipulations for large phylogenies, including pruning, rerooting, calculation of most-recent common ancestors, calculating distances from the tree root and calculating pairwise distances. Calculation of phylogenetic signal and mean trait depth (trait conservatism), ancestral state reconstruction and hidden character prediction of discrete characters. Simulating and fitting models of trait evolution, and generating random trees using birth-death models. Dating trees, comparing two trees, and reading/writing trees to a file. Citation: Louca, Stilianos and Doebeli, Michael (2017) <doi:10.1093/bioinformatics/btx701>.

Getting started

Package details

AuthorStilianos Louca
MaintainerStilianos Louca <[email protected]>
LicenseGPL (>= 2)
Package repositoryView on CRAN
Installation Install the latest version of this package by entering the following in R:

Try the castor package in your browser

Any scripts or data that you put into this service are public.

castor documentation built on Aug. 17, 2018, 1:04 a.m.