beast-parser: read.beast

In treeio: Base Classes and Functions for Phylogenetic Tree Input and Output

Description

read beast/mrbayes/mega Nexus output

Usage

read.beast(file)

read.mrbayes(file)

read.mega(file)

Arguments

file	beast file

Value

treedata object

Author(s)

Guangchuang Yu https://guangchuangyu.github.io

Examples

file <- system.file("extdata/BEAST", "beast_mcc.tree", package="treeio")
read.beast(file)

Example output

'beast' S4 object that stored information of
	 '/usr/local/lib/R/site-library/treeio/extdata/BEAST/beast_mcc.tree'.

...@ tree: 
Phylogenetic tree with 15 tips and 14 internal nodes.

Tip labels:
	A_1995, B_1996, C_1995, D_1987, E_1996, F_1997, ...

Rooted; includes branch lengths.

with the following features available:
	'height',	'height_0.95_HPD',	'height_median',	'height_range',	'length',
	'length_0.95_HPD',	'length_median',	'length_range',	'posterior',	'rate',
	'rate_0.95_HPD',	'rate_median',	'rate_range'.

treeio documentation built on Nov. 21, 2020, 2:01 a.m.