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This type of program can be used for a variety of analyses of molecular data sets, but is particularly designed for phylogenomics. Besides tree description formats with limited expressiveness (such as Newick/New Hamphshire, Nexus), it also implements the phyloXML [1] format. Archaeopteryx is the successor to Java program A Tree Viewer (ATV). [2]
Description OS 1 Citation ARB 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 ...
TreeLine is a free and simple outliner with advanced data element definition and export abilities. It uses a basic tree structure to organize information, and allows the user to define different types of nodes and leaves.
Tree-sitter parsers have been written for these languages and many others. [11] GitHub uses Tree-sitter to support in-browser symbolic code navigation in Git repositories. [12] Tree-sitter uses a GLR parser, a type of LR parser. [13] [14] [12] Tree-sitter was originally developed by GitHub for use in the Atom text editor, where it was first ...
This is a list of free and open-source software (FOSS) packages, computer software licensed under free software licenses and open-source licenses. Software that fits the Free Software Definition may be more appropriately called free software ; the GNU project in particular objects to their works being referred to as open-source . [ 1 ]
Description Methods Author ADMIXTOOLS [1] R software package that contains the qpGraph, qpAdm, qpWave, and qpDstat programs Nick Patterson, David Reich: AncesTree [2] An algorithm for clonal tree reconstruction from multi-sample cancer sequencing data. Maximum Likelihood, Integer Linear Programming (ILP)
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CSS generator that generates a CSS line for the object tree; Code map generator for the CSS changes made; Features are made available through plugins. The plugins are small programs working with the object tree. After the core has transformed a CSS string into an object tree, the plugins analyze and change the tree. Then PostCSS generates a new ...