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    • piqtree

      Public
      A Python library that exposes features from IQ-TREE - efficient software for phylogenomic inference
      Python
      •
      GNU General Public License v2.0
      •10•39•0•2•Updated Dec 22, 2025Dec 22, 2025

    • iqtree3

      Public
      IQ-TREE version 3: software for phylogenetics
      C++
      •
      GNU General Public License v2.0
      •25•101•36•2•Updated Dec 20, 2025Dec 20, 2025

    • cmaple

      Public
      MAximum Parsimonious Likelihood Estimation in C/C++
      C
      •
      GNU General Public License v2.0
      •3•7•9•0•Updated Dec 17, 2025Dec 17, 2025

    • VBayes

      Public
      Variational time tree inference with Graph Neural Networks
      Python
      •
      GNU General Public License v2.0
      •0•1•0•0•Updated Nov 24, 2025Nov 24, 2025

    • iqtree.github.io

      Public
      IQ-TREE main website
      CSS
      •7•2•0•1•Updated Sep 16, 2025Sep 16, 2025

    • paml

      Public
      C
      •
      GNU General Public License v3.0
      •0•3•2•0•Updated May 23, 2025May 23, 2025

    • iqtree2

      Public
      IQ-TREE software version 2: phylogenetics by maximum likelihood
      C++
      •
      GNU General Public License v2.0
      •69•320•110•3•Updated Apr 29, 2025Apr 29, 2025

    • decenttree

      Public
      Fast Neighbor-Joining and other distance-based methods for phylogenetics
      C++
      •
      GNU General Public License v2.0
      •8•14•5•3•Updated Jun 21, 2024Jun 21, 2024

    • cmaple_api

      Public
      A Demo of CMaple API documentation
      0•0•0•0•Updated May 14, 2024May 14, 2024

    • iqtree1

      Public
      IQ-TREE version 1
      C++
      •
      GNU General Public License v2.0
      •2•3•0•0•Updated Jun 17, 2020Jun 17, 2020