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    • Nextflow pipeline to convert OMA to OMA browser
      Nextflow
      MIT License
      0200Updated Mar 25, 2026Mar 25, 2026
    • Automatic benchmarking of Fastoma over time
      Python
      0200Updated Mar 25, 2026Mar 25, 2026
    • foldtree2

      Public
      foldtree2
      Jupyter Notebook
      GNU Affero General Public License v3.0
      4960Updated Mar 24, 2026Mar 24, 2026
    • ESM3di

      Public
      using ESM2 to translate amino acids to 3di sequences to create foldseek
      Jupyter Notebook
      MIT License
      0000Updated Mar 24, 2026Mar 24, 2026
    • FastOMA

      Public
      FastOMA is a scalable software package to infer orthology relationship.
      Python
      Mozilla Public License 2.0
      179385Updated Mar 17, 2026Mar 17, 2026
    • retrain yolov8 to segment and label yeast cells with interupted fusion phenotypes
      Jupyter Notebook
      MIT License
      0100Updated Mar 12, 2026Mar 12, 2026
    • HTML
      GNU General Public License v3.0
      4000Updated Mar 6, 2026Mar 6, 2026
    • fold_tree

      Public
      Infers a phylogenetic tree from protein structures
      Jupyter Notebook
      MIT License
      1710190Updated Mar 3, 2026Mar 3, 2026
    • pyoma

      Public
      Python library to interact with OMA hdf5 files
      Python
      Mozilla Public License 2.0
      0103Updated Feb 27, 2026Feb 27, 2026
    • Django Matomo app allowing server side traffic tracking
      Python
      Other
      1102Updated Feb 24, 2026Feb 24, 2026
    • matreex

      Public
      HTML
      21700Updated Feb 16, 2026Feb 16, 2026
    • ampliphy

      Public
      Improve phylogenetic inference by amplifying multiple sequence alignment with homologous sequences
      Nextflow
      MIT License
      1400Updated Feb 13, 2026Feb 13, 2026
    • phylo-io

      Public
      Phylo.IO JS tree viewer
      JavaScript
      MIT License
      113551Updated Jan 21, 2026Jan 21, 2026
    • Consensus genome annotation using OMA
      Python
      23140Updated Jan 14, 2026Jan 14, 2026
    • Scripts used to generate the data and figures of AmpliPhy project
      Python
      MIT License
      0000Updated Jan 1, 2026Jan 1, 2026
    • Tools for working with OrthoXML files.
      Python
      GNU General Public License v3.0
      14150Updated Dec 30, 2025Dec 30, 2025
    • read2tree

      Public
      a tool for inferring species tree from sequencing reads
      Python
      MIT License
      19160220Updated Dec 9, 2025Dec 9, 2025
    • OMArk

      Public
      Python
      GNU Lesser General Public License v3.0
      791100Updated Dec 3, 2025Dec 3, 2025
    • omamer

      Public
      OMAmer - tree-driven and alignment-free protein assignment to sub-families
      Python
      GNU Lesser General Public License v3.0
      52241Updated Nov 21, 2025Nov 21, 2025
    • OMA standalone repository
      Python
      Other
      3731Updated Nov 21, 2025Nov 21, 2025
    • pyham

      Public
      Python
      MIT License
      71194Updated Nov 21, 2025Nov 21, 2025
    • taxonomy
      Python
      GNU General Public License v3.0
      0002Updated Nov 20, 2025Nov 20, 2025
    • Foldtree using ProstT5 to run comparisons. Not benchmarked. Use at your own risk
      Python
      MIT License
      0100Updated Nov 14, 2025Nov 14, 2025
    • Vue
      0000Updated Oct 30, 2025Oct 30, 2025
    • pyopa

      Public
      A fast implementation of optimal pairwise alignments with python
      C
      Mozilla Public License 2.0
      2715Updated Oct 27, 2025Oct 27, 2025
    • Django based webserver for omabrowser
      JavaScript
      Creative Commons Attribution 4.0 International
      0100Updated Oct 21, 2025Oct 21, 2025
    • edgehog

      Public
      Infering ancestral synteny with hierarchical orthologous groups
      Python
      MIT License
      33825Updated Oct 17, 2025Oct 17, 2025
    • corecut

      Public
      command line tool to extract consensus regions from sets of homologous structures
      Python
      MIT License
      0000Updated Oct 13, 2025Oct 13, 2025
    • HogProf

      Public
      Phylogenetic profiling with orthology data
      Jupyter Notebook
      MIT License
      21301Updated Oct 10, 2025Oct 10, 2025
    • Get estimated ancestral genome sizes using OMA and other orthology databases
      Jupyter Notebook
      0100Updated Jul 31, 2025Jul 31, 2025