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tidytree: A Tidy Tool for Phylogenetic Tree Data Manipulation

Phylogenetic tree generally contains multiple components including node, edge, branch and associated data. 'tidytree' provides an approach to convert tree object to tidy data frame as well as provides tidy interfaces to manipulate tree data.

Authors

Guangchuang YU https://guangchuangyu.github.io

School of Public Health, The University of Hong Kong

Installation

Get the released version from CRAN:

install.packages("tidytree")

Or the development version from github:

## install.packages("devtools")
devtools::install_github("GuangchuangYu/tidytree")

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Version

Install

install.packages('tidytree')

Monthly Downloads

59,498

Version

0.1.9

License

Artistic-2.0

Issues

Pull Requests

Stars

Forks

Maintainer

Guangchuang Yu

Last Published

June 13th, 2018

Functions in tidytree (0.1.9)

get_tree_data

get_tree_data
groupOTU

groupOTU
treedata-class

Class "treedata" This class stores phylogenetic tree with associated data
sibling

sibling
ancestor

ancestor
MRCA

MRCA
offspring

offspring
child

child
get.data

get.data method
groupClade

groupClade
as.treedata

as.treedata
get.fields

get.fields method
parent

parent
treedata

treedata
reexports

Objects exported from other packages
show

show method
rootnode

rootnode