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data.tree

An R package to manage hierarchical data and tree structures

Hierarchical data is ubiquitous in statistics and programming (XML, search trees, family trees, classification, file system, etc.). However, no general-use tree data structure is available in R. Where tabular data has data.frame, hierarchical data is often modeled in lists of lists or similar makeshifts. These structures are often difficult to manage. This is where the data.tree package steps in. It lets you build trees of hierarchical data for various uses: to print, to generate breakdowns, to integrate with html widgets, to rapid prototype search algorithms, to test out new classification ideas, and much more.

The package provides functionality to convert from and to various formats such as data.frames, list of lists, dendrograms, ape phylo, igraph, JSON, YAML, and more.

NOTE:

The latest from github has some breaking changes compared to CRAN. See NEWS for details.

Conventions:

Coding Conventions: Google Style Guide, see https://google-styleguide.googlecode.com/svn/trunk/Rguide.xml

Versioning Conventions: SemanticVersioning. See http://semver.org/ for details

Branching Conventions: GitFlow. See https://www.atlassian.com/git/tutorials/comparing-workflows/gitflow-workflow

Pull Requests: Very welcome. Please branch from the dev branch if possible.

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Install

install.packages('data.tree')

Monthly Downloads

11,991

Version

0.2.0-3

License

GPL (>= 2)

Issues

Pull Requests

Stars

Forks

Repository

http://github.com/gluc/data.tree

Maintainer

Christoph Glur

Last Published

November 12th, 2023

Functions in data.tree (0.2.0-3)

Check if a Node is a leaf

Convert a phylo object from the ape package to a Node

Check if a Node is not a leaf

FormatFixedDecimal

Format a Number as a Decimal

NODE_RESERVED_NAMES_CONST

Names that are reserved by the Node class.

Create a data.tree Structure With Nodes

data.tree: Hierarchical Data Structures

Clone a tree (creates a deep copy)

Convert a Node to a phylo object from the ape package.

Get an attribute from a Node.

Prunes a tree. This function has side-effects, it modifies your data.tree structure!

as.Node.data.frame

Convert a data.frame to a data.tree structure

Find a Node by provided criteria.

CreateRegularTree

Create a tree for demo and testing

Executes a function an a set of nodes

Aggregate child values of a Node, standalone or in traversal.

Sort children of a Node or an entire data.tree structure

as.Node.dendrogram

Convert a dendrogram to a data.tree Node

Traverse a Tree and Collect Values

Convert a data.tree structure to a list-of-list structure

Write a data.tree structure to Newick notation

Test whether all node names are unique.

CreateRandomTree

Create a tree for demo and testing

DefaultPlotHeight

Calculates the height of a Node given the hight of the root.

Print a Node in a human-readable fashion.

Format a Number as a Percentage

Traverse a tree or a sub-tree

Sample Data: A Simple Company with Departments

Cumulate values among siblings

Traverse a Tree and Assign Values

Check if a Node is the root

Sample Data: Data Used by the ID3 Vignette

as.dendrogram.Node

Convert a Node to a dendrogram

Reverts the sort order of a Node's children.

Convert a nested list structure to a data.tree structure

Convert a data.tree structure to an igraph network

Determine the number a Node has after conversion to a phylo object

Set a formatter function on a specific node

Convert an object to a data.tree data structure

Check if a Node is not a root

as.data.frame.Node

Convert a data.tree structure to a data.frame

ClimbByAttribute

Find a Node by provided criteria.

averageBranchingFactor

Calculate the average number of branches each non-leaf has