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tidytree (version 0.4.6)

A Tidy Tool for Phylogenetic Tree Data Manipulation

Description

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.

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Version

Install

install.packages('tidytree')

Monthly Downloads

30,634

Version

0.4.6

License

Artistic-2.0

Maintainer

Guangchuang Yu

Last Published

December 12th, 2023

Functions in tidytree (0.4.6)

as.treedata

as.treedata
get.data

get.data method
drop.tip

drop.tip method
nodeid

nodeid
Nnode.treedata

Nnode
get_tree_data

get_tree_data
getNodeNum

getNodeNum
isTip

isTip
node.label

extract the node label of phylo, treedata or tbl_tree
rootnode

rootnode
get.treetext

get.treetext method
get.fields

get.fields method
child

child
groupClade

groupClade
offspring

offspring
parent

parent
nodelab

nodelab
tip.label

extract the tip label of phylo treedata or tbl_tree
reexports

Objects exported from other packages
root.treedata

root
tree_subset

Subset tree objects by related nodes
sibling

sibling
td-label-assign

the tip or internal node label assign of tbl_tree phylo and treedata
show

show method
groupOTU

groupOTU
treedata

treedata
treedata-class

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

ancestor
as.ultrametric

as.ultrametric
MRCA

MRCA