Repositories list

• dismech

  Public
  Disease Mechanisms KB

  monarchinitiativeobofoundryrare-disease+ 4disease-mechanismslinkmlagentic-aikozahub-ingest

  HTML

  •

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

  •2•11•58•21•Updated Mar 4, 2026Mar 4, 2026

• zfin-genotype-to-phenotype-ingest

  Public
  Python

  •

  MIT License

  •0•0•0•3•Updated Mar 4, 2026Mar 4, 2026

• kozahub

  Public
  Dashboard monitoring KozaHub ingest repository health

  Python

  •0•0•0•0•Updated Mar 4, 2026Mar 4, 2026

• boomer-py

  Public
  monarchinitiativeai4curation

  Python

  •0•1•0•6•Updated Mar 4, 2026Mar 4, 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 Mar 4, 2026Mar 4, 2026

• cde-harmonization

  Public
  Initial private repo for P1 CDE harmonization

  Python

  •0•3•6•1•Updated Mar 3, 2026Mar 3, 2026

• mondo

  Public template
  Mondo Disease Ontology

  owlontologymondo+ 5diseasemonarchinitiativedisease-classificationobofoundryai4curation

  Jupyter Notebook

  •

  Creative Commons Attribution 4.0 International

  •64•292•405•52•Updated Mar 3, 2026Mar 3, 2026

• pheval.llm

  Public
  Analysis of LLMs for Clinical Observations

  hpomonarchinitiativephenopackets+ 4clinical-diagnosisbiomedical-ontologiesrare-diseaseslarge-language-models

  Python

  •

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

  •1•7•2•2•Updated Mar 3, 2026Mar 3, 2026

• pheval.exomiser

  Public
  Exomiser plugin for PhEval.

  monarchinitiative

  Python

  •2•4•2•2•Updated Mar 3, 2026Mar 3, 2026

• alliance-genotype-ingest

  Public
  Python

  •

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

  •0•1•0•2•Updated Mar 3, 2026Mar 3, 2026

• alliance-disease-association-ingest

  Public
  Python

  •

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

  •0•0•0•4•Updated Mar 3, 2026Mar 3, 2026

• alliance-phenotype-association-ingest

  Public
  Python

  •

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

  •0•0•0•2•Updated Mar 3, 2026Mar 3, 2026

• ncbi-gene

  Public
  Python

  •

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

  •1•0•0•3•Updated Mar 3, 2026Mar 3, 2026

• monarch-phenotype-profile-ingest

  Public
  human phenotype related ingests

  kozahub-ingest

  Python

  •

  MIT License

  •0•0•0•4•Updated Mar 3, 2026Mar 3, 2026

• zfin-orthology-ingest

  Public
  Python

  •

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

  •0•0•0•4•Updated Mar 3, 2026Mar 3, 2026

• maxo-annotation-ingest

  Public
  kozahub-ingest

  Python

  •

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

  •0•0•0•4•Updated Mar 3, 2026Mar 3, 2026

• monarch-project-copier

  Public
  New template for monarch repos, replaces old cookiecutter

  templatebest-practicescookiecutter+ 2copiermonarchinitiative

  Jinja

  •

  MIT License

  •1•3•1•5•Updated Mar 1, 2026Mar 1, 2026

• go-ingest

  Public
  gene ontology ingest from gene association formatted files

  kozahub-ingest

  Python

  •

  MIT License

  •0•0•0•4•Updated Mar 1, 2026Mar 1, 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 Mar 1, 2026Mar 1, 2026

• omim-ingest

  Public
  kozahub-ingest

  Python

  •

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

  •0•0•0•4•Updated Mar 1, 2026Mar 1, 2026

• biogrid-ingest

  Public
  BioGRID ingest

  kozahub-ingest

  Python

  •

  MIT License

  •0•0•2•5•Updated Mar 1, 2026Mar 1, 2026

• alliance-ingest

  Public
  Biolink Model compliant KGX transformation of data from the Alliance of Genome Resources

  kozahub-ingest

  Python

  •

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

  •0•0•0•4•Updated Mar 1, 2026Mar 1, 2026

• mmrrc-ingest

  Public
  kozahub-ingest

  Python

  •

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

  •0•0•0•1•Updated Mar 1, 2026Mar 1, 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 Mar 1, 2026Mar 1, 2026

• clingen-ingest

  Public
  kozahub-ingest

  Python

  •

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

  •0•3•1•4•Updated Mar 1, 2026Mar 1, 2026

• medgen

  Public
  MedGen ingest.

  monarchinitiative

  Python

  •0•2•9•0•Updated Mar 1, 2026Mar 1, 2026

• string-ingest

  Public
  kozahub-ingest

  Python

  •

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

  •0•0•0•0•Updated Mar 1, 2026Mar 1, 2026

• pantherdb-orthologs-ingest

  Public
  orthologs ingest from pantherdb

  kozahub-ingest

  Python

  •

  MIT License

  •0•0•2•4•Updated Mar 1, 2026Mar 1, 2026

• bgee-ingest

  Public
  kozahub-ingest

  Python

  •

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

  •0•0•0•0•Updated Mar 1, 2026Mar 1, 2026

• hgnc-ingest

  Public
  Python

  •

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

  •0•0•0•0•Updated Mar 1, 2026Mar 1, 2026