The main goal of the R package treeDbalance is to provide functions for the computation of several measurements of 3D node imbalance and their respective 3D tree imbalance indices, as well as to introduce the new phylo3D format for rooted 3D tree objects. Moreover, it encompasses an example dataset of 3D models of 63 beans in phylo3D format. Please note that this R package was developed alongside the project described in the manuscript Measuring 3D tree imbalance of plant models using graph-theoretical approaches by M. Fischer, S. Kersting, and L. Kühn (2023) <doi:10.48550/arXiv.2307.14537>, which provides precise mathematical definitions of the measurements. Furthermore, the package contains several helpful functions, for example, some auxiliary functions for computing the ancestors, descendants, and depths of the nodes, which ensures that the computations can be done in linear time, or functions that convert existing formats of 3D tree models of other software into the phylo3D format. Moreover, it comprises functions to extract the graph-theoretical topology without vertices of in- and out-degree 1 of rooted 3D trees as well as to adapt node enumerations to the common phylo format. Most functions of treeDbalance require as input a rooted tree in the phylo3D format, an extended phylo format (as introduced in the R package ape 1.9 in November 2006). Such a phylo3D object must have at least two new attributes next to those required by the phylo format: node.coord', the coordinates of the nodes, as well as edge.weight', the literal weight or volume of the edges. Optional attributes are edge.diam', the diameter of the edges, and edge.length', the length of the edges. For visualization purposes one can also specify edge.type', which ranges from normal cylinder to bud to leaf, as well as edge.color to change the color of the edge depiction. This project was supported by the joint research project DIG-IT! funded by the European Social Fund (ESF), reference: ESF/14-BM-A55-0017/19, and the Ministry of Education, Science and Culture of Mecklenburg-Western Pomerania, Germany, as well as by the project ArtIGROW, which is a part of the WIR!-Alliance ArtIFARM â Artificial Intelligence in Farming funded by the German Federal Ministry of Education and Research (FKZ: 03WIR4805).

Documentation at https://melpa.org/#/tree-edit

Documentation at https://melpa.org/#/tree-mode

Documentation at https://melpa.org/#/leaf-tree

Documentation at https://melpa.org/#/pair-tree

Documentation at https://melpa.org/#/jump-tree

This package provides an Emacs library to manage tree widgets.

This package provides macros to draw trees, within TeX or LaTeX.

This package provides PHP grammars for the Tree-sitter library.

This package provides CSV grammars for the Tree-sitter library.

This package provides a server between Kakoune and tree-sitter.

The package lets you draw binary or ternary trees of any size.

This package provides a Nim grammar for the Tree-sitter library.

This package provides a C++ grammar for the Tree-sitter library.

This package provides a SQL grammar for the Tree-sitter library.

This package provides a TCL grammar for the Tree-sitter library.

This package provides a Ada grammar for the Tree-sitter library.

This package provides a KDL grammar for the Tree-sitter library.

This package provides a Nix grammar for the Tree-sitter library.

This package provides a Dot grammar for the Tree-sitter library.

This package provides a ASM grammar for the Tree-sitter library.

This package provides an HCL grammar for the Tree-sitter library.

This package provides an Elm grammar for the Tree-sitter library.

This package provides a Org grammar for the Tree-sitter library.