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An integrated software environment for tree visualisation and annotation: LM [19] Archaeopteryx: Java tree viewer and editor (used to be ATV) [20] BioNumerics: Universal platform for the management, storage and analysis of all types of biological data, including tree and network inference of sequence data: W [21] Dendroscope
Gramps uses Graphviz to create genealogical (family tree) diagrams. Graph-tool a Python library for graph manipulation and visualization. OmniGraffle version 5 and later uses the Graphviz engine, with a limited set of commands, for automatically laying out graphs. [9] Org-mode can work with DOT source code blocks. [10]
Fast ML tree reconstruction, bootstrap analysis, model selection, hypothesis testing, tree calibration, tree manipulation and visualization, computation of sitewise rates, sequence simulation, many models of evolution (DNA, protein, rRNA, mixed protein, user-definable), GUI and scripting language: Maximum likelihood, distances, and others
Also supports Python and Java; doxygen : Uses Graphviz to generate static call/inheritance diagrams; Cally: a tool that uses GCC's Register Transfer Language (RTL) files to build a caller or callee call graphs for C projects. cflow : GNU cflow is able to generate the direct and inverted call graph of a C program
The original tree is converted to a binary tree: each node with more than two children is replaced by a sub-tree in which each node has exactly two children. Each region representing a node (starting from the root) is divided to two, using a line that keeps the angles between edges as large as possible.
Supports following UML diagrams: Use case diagram, Sequence diagram, Collaboration diagram, Class diagram, Statechart diagram, Activity diagram, Component diagram, Deployment diagram and Package diagram Rational Rhapsody: Yes Yes Yes Yes C++, C, Java, Ada, Corba, Customizable for other languages C++, C, Java, Ada, Customizable for other languages
diagrams.net (previously draw.io [2] [3]) is a cross-platform graph drawing software application developed in HTML5 and JavaScript. [4] Its interface can be used to create diagrams such as flowcharts , wireframes , UML diagrams, organizational charts , and network diagrams .
class inheritance diagrams cross reference to generated documentation, and to php.net function reference Yes pydoc: RDoc: ROBODoc: Sphinx: Customizable themes (10 first-party); Jinja templating; Python plugins class inheritance diagrams, graphviz, third party (e.g. using aafigure, actdiag, Google Chart, gnuplot, mermaid)