Archaeopteryx.js is a software tool for the visualization and analysis of highly annotated phylogenetic trees.
forester is a collection of open source libraries of Java and Ruby software for phylogenomics and evolutionary biology research
Light phylogeny library for Rust
A feature rich and easy to use phylogenetic tree editor
phyloxml.js is a JavaScript program for reading (SAX style parser) and writing phylogenetic trees in phyloXML format.
Read, write, and manipulate phylogenetic trees
A compatability library implementing PhyloXML parsing from the legacy version of PhyD3.
A Java library for event-based reading and writing of different phylogenetic file formats through a common interface
Representative sequence selection for large bioinformatics datasets
Automated maximum-likelihood phylogeny pipeline for viral families. Discovers species via NCBI Taxonomy, downloads from GenBank, aligns with MAFFT, builds trees with FastTree (broad) and IQ-TREE (refined), and annotates internal nodes by LCA. Supports multi-marker concatenation for large DNA virus families.
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