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@Translator-CATRAX Translator-CATRAX

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    19 repositories

    • xCRG

      Public
      xCRG package for MVP2 gene activity/abundance inferred queries
      Python
      •1•0•1•1•Updated Aug 18, 2026Aug 18, 2026

    • pathfinder

      Public
      Pathfinder is designed to identify semantic paths between two biological entities.
      Python
      •0•0•0•0•Updated Aug 16, 2026Aug 16, 2026

    • LLM_PMID_checker_eval

      Public
      Compute metrics at the KGX triple level and performs sampling for evaluation.
      Python
      •0•0•0•0•Updated Aug 12, 2026Aug 12, 2026

    • stitch-proj

      Public
      Sqlite ingest and querying tools for the Babel biomedical concept database
      Python
      •
      MIT License
      •2•0•5•0•Updated Aug 5, 2026Aug 5, 2026

    • LLM_PMID_Checker

      Public
      Python
      •3•1•0•0•Updated Jul 7, 2026Jul 7, 2026

    • Translator_component_toolkit

      Public
      Jupyter Notebook
      •9•0•0•0•Updated Jul 7, 2026Jul 7, 2026

    • shepherd

      Public
      Shepherd is a shared platform for Translator ARA implementation.
      Python
      •5•0•2•0•Updated May 14, 2026May 14, 2026

    • node-synonymizer

      Public
      SRI Node Normalizer / Name Resolver client for CURIE and name lookup in Translator applications.
      translatorbioinformaticssri
      translatorbioinformaticssribiomedicalcuriebiolinkncatsnode-normalizer
      Python
      •
      MIT License
      •0•0•0•0•Updated Apr 22, 2026Apr 22, 2026

    • SemMedDB-KGX

      Public
      This project is an effort to prepare a KGX format SemMedDB edges an nodes jsonl files for https://github.com/Translator-CATRAX/LLM_PMID_Checker
      Python
      •0•1•0•0•Updated Apr 8, 2026Apr 8, 2026

    • TranslatorPharcogenomicsKG

      Public
      Fork of parsing & data modeling code for Pharcogenomics KG
      Jupyter Notebook
      •1•0•0•0•Updated Feb 12, 2026Feb 12, 2026

    • biolink-helper

      Public
      Python
      •0•0•0•0•Updated Feb 10, 2026Feb 10, 2026

    • NL2TRAPI

      Public
      NL2TRAPI
      0•0•0•0•Updated Jan 28, 2026Jan 28, 2026

    • LLM_PMID_Checker_NLI_VERSION

      Public
      Python
      •1•0•0•0•Updated Jan 20, 2026Jan 20, 2026

    • node-embedder

      Public
      Using an LLM to semantically embed Translator knowledge graph nodes based on free-text description field information
      Python
      •
      MIT License
      •0•0•0•0•Updated Oct 31, 2025Oct 31, 2025

    • MULTIOMICS_KG

      Public
      Here are the configs for MultiomicsKG. Feel free to add or edit any of these as you see fit. There's a config checker and guidelines here too.
      yamlconfigurationpython3
      yamlconfigurationpython3knowledge-graphmicrobiomencats-translatormultiomicstablassert
      Python
      •
      MIT License
      •0•0•0•0•Updated Aug 4, 2025Aug 4, 2025

    • useful_tools

      Public
      For chucking useful scripts, information, etc.
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Apr 10, 2025Apr 10, 2025

    • curie-clean

      Public
      A Clojure utility for analyzing and resolving duplicate nodes in knowledge graph exchange (KGX) formatted knowledge graphs, with Tablassert integration and Biol…
      clojurequality-controlknowledge-graph
      clojurequality-controlknowledge-graphyaml-configurationncats-translatortablassert
      Clojure
      •
      MIT License
      •0•1•0•0•Updated Apr 7, 2025Apr 7, 2025

    • Y1-catrax-milestones

      Public
      0•1•197•0•Updated Mar 24, 2025Mar 24, 2025

    • findpaths

      Public
      Code for finding all paths between two vertices, in a knowledge graph
      Python
      •0•0•0•0•Updated Mar 1, 2025Mar 1, 2025
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