Repositories list

• dismech

  Public
  Disease Mechanisms KB

  kozahub-ingest

  HTML

  •

  BSD 3-Clause "New" or "Revised" License

  •1•8•32•16•Updated Feb 11, 2026Feb 11, 2026

• mondo

  Public template
  Mondo Disease Ontology

  owlontologymondo+ 5diseasemonarchinitiativedisease-classificationobofoundryai4curation

  Jupyter Notebook

  •

  Creative Commons Attribution 4.0 International

  •64•289•394•54•Updated Feb 11, 2026Feb 11, 2026

• omim

  Public
  Data ingest pipeline for OMIM.

  biomedical-informaticsmonarchinitiativeontology-engineering

  Jupyter Notebook

  •4•8•72•6•Updated Feb 11, 2026Feb 11, 2026

• pheval

  Public
  A framework for empirical evaluation of phenotype matching and prioritisation

  monarchinitiative

  Python

  •

  Apache License 2.0

  •5•15•24•4•Updated Feb 11, 2026Feb 11, 2026

• kozahub

  Public
  Dashboard monitoring KozaHub ingest repository health

  Python

  •0•0•0•0•Updated Feb 11, 2026Feb 11, 2026

• zfin-genotype-to-phenotype-ingest

  Public
  Python

  •

  MIT License

  •0•0•0•3•Updated Feb 11, 2026Feb 11, 2026

• monarch-ingest

  Public
  Data ingest application for Monarch Initiative knowledge graph using Koza

  pythonneo4jsolr+ 7sqlitesemantic-webmonarchinitiativekgxknowledge-graphslinkmllinkml-schema

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •5•20•38•10•Updated Feb 10, 2026Feb 10, 2026

• monarch-phenotype-profile-ingest

  Public
  human phenotype related ingests

  kozahub-ingest

  Python

  •

  MIT License

  •0•0•0•4•Updated Feb 10, 2026Feb 10, 2026

• monarch-app

  Public
  Monarch Initiative website and API

  monarchinitiative

  Vue

  •

  BSD 3-Clause "New" or "Revised" License

  •7•32•217•17•Updated Feb 10, 2026Feb 10, 2026

• pheval.exomiser

  Public

  monarch-initiative/pheval.exomiser’s past year of commit activity
  Exomiser plugin for PhEval.

  monarchinitiative

  Python

  •2•4•2•1•Updated Feb 10, 2026Feb 10, 2026

• pantherdb-orthologs-ingest

  Public
  orthologs ingest from pantherdb

  kozahub-ingest

  Python

  •

  MIT License

  •0•0•2•4•Updated Feb 9, 2026Feb 9, 2026

• monarchr

  Public
  R package for easy access, manipulation, and analysis of the Monarch Initiative or other KGX-formatted knowledge graphs.

  knowledge-graphrlangmonarchinitiative

  R

  •

  Other

  •3•16•7•1•Updated Feb 9, 2026Feb 9, 2026

• clinvar-ingest

  Public
  kozahub-ingest

  Python

  •

  MIT License

  •0•3•1•4•Updated Feb 9, 2026Feb 9, 2026

• clingen-ingest

  Public
  kozahub-ingest

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•3•0•4•Updated Feb 9, 2026Feb 9, 2026

• koza

  Public
  Data transformation framework for LinkML data models

  etlontologyknowledge-graph+ 4monarchinitiativeobofoundrylinkmlkoza

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •5•60•39•8•Updated Feb 9, 2026Feb 9, 2026

• maxo-annotation-ingest

  Public
  kozahub-ingest

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•4•Updated Feb 9, 2026Feb 9, 2026

• omim-ingest

  Public
  kozahub-ingest

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•4•Updated Feb 9, 2026Feb 9, 2026

• phenopacket-store

  Public
  Collections of GA4GH phenopackets that represent individuals with Mendelian diseases.

  ga4ghhpomonarchinitiative+ 1phenopackets

  Jupyter Notebook

  •

  BSD 3-Clause "New" or "Revised" License

  •6•30•3•0•Updated Feb 9, 2026Feb 9, 2026

• biogrid-ingest

  Public
  BioGRID ingest

  kozahub-ingest

  Python

  •

  MIT License

  •0•0•2•5•Updated Feb 9, 2026Feb 9, 2026

• go-ingest

  Public
  gene ontology ingest from gene association formatted files

  kozahub-ingest

  Python

  •

  MIT License

  •0•0•0•4•Updated Feb 9, 2026Feb 9, 2026

• medgen

  Public
  MedGen ingest.

  monarchinitiative

  Python

  •0•1•9•0•Updated Feb 8, 2026Feb 8, 2026

• ELDER

  Public
  LLM embeddings for rare disease diagnostics

  Python

  •0•6•6•0•Updated Feb 7, 2026Feb 7, 2026

• mmrrc-ingest

  Public
  kozahub-ingest

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•1•Updated Feb 7, 2026Feb 7, 2026

• koza-ingest-template

  Public
  A Cruft cookiecutter for modular Koza ingests

  Jinja

  •1•2•6•2•Updated Feb 6, 2026Feb 6, 2026

• hgnc-ingest

  Public
  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Feb 6, 2026Feb 6, 2026

• dictybase-ingest

  Public
  Dictybase gene and phenotype ingest for Dictyostelium discoideum

  kozahub-ingest

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Feb 6, 2026Feb 6, 2026

• zfin-ingest

  Public
  ZFIN data ingest for the Monarch Knowledge Graph

  kozahub-ingest

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Feb 5, 2026Feb 5, 2026

• string-ingest

  Public
  kozahub-ingest

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Feb 5, 2026Feb 5, 2026

• bgee-ingest

  Public
  kozahub-ingest

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Feb 5, 2026Feb 5, 2026

• reactome-ingest

  Public
  Koza transforms for Reactome pathway data

  kozahub-ingest

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Feb 5, 2026Feb 5, 2026