Repositories list

• kg-microbe

  Public
  knowledge-graphnamed-entity-recognitionmicrobial-genomics+ 17

  knowledge-graphnamed-entity-recognitionmicrobial-genomicsmicrobial-trait-predictionmicrobiologymetabolismtraitsphenotypesdata-modelingmicrobial-genomes+ 10

  Jupyter Notebook

  •

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

  •4•22•209•2•Updated Mar 25, 2026Mar 25, 2026

• agent-alz-assistant

  Public
  Agentic AI assistant for Alzheimer's disease research with literature retrieval and knowledge synthesis

  Python

  •0•2•0•1•Updated Mar 13, 2026Mar 13, 2026

• kg-registry

  Public
  A registry of Knowledge Graphs, their data sources, and the ways they fit together.

  registryknowledgegraph+ 3

  registryknowledgegraphknowledge-graphkgkg-hub

  Python

  •

  Other

  •5•24•34•0•Updated Mar 11, 2026Mar 11, 2026

• kg-phenio

  Public
  A graph for accessing and comparing knowledge concerning phenotypes across species and genetic backgrounds.

  Python

  •

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

  •4•6•22•3•Updated Mar 8, 2026Mar 8, 2026

• automate-pheno-comparisons

  Public
  Jenkins-based automation of phenotype semantic similarity on PHENIO with Semsimian.

  Python

  •

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

  •0•3•12•2•Updated Feb 4, 2026Feb 4, 2026

• kg-microbe-merge

  Public
  Python

  •

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

  •0•1•1•1•Updated Jan 6, 2026Jan 6, 2026

• knowledge-graph-hub.github.io

  Public
  Python

  •

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

  •4•8•4•0•Updated Dec 23, 2025Dec 23, 2025

• microbe-traits-ingest

  Public
  Python

  •

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

  •0•1•0•2•Updated Nov 24, 2025Nov 24, 2025

• restoration_ingests

  Public
  Python

  •

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

  •0•0•1•2•Updated Nov 24, 2025Nov 24, 2025

• kg-alzheimers

  Public
  A knowledge graph integrating biomedical data related to Alzheimer's Disease

  Python

  •1•2•21•1•Updated Oct 8, 2025Oct 8, 2025

• nicegui-app-copier

  Public
  Copier template for creating agentic AI assistants with NiceGUI and Claude Code CLI

  Jinja

  •0•2•0•0•Updated Oct 7, 2025Oct 7, 2025

• .github

  Public
  Welcome to KG-Hub

  0•0•0•0•Updated Aug 25, 2025Aug 25, 2025

• universalizer

  Public
  The KG-Hub Universalizer provides functions for knowledge graph cleanup and identifier normalization.

  Python

  •

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

  •2•3•4•0•Updated Mar 21, 2025Mar 21, 2025

• kg-hub-containers

  Public
  Documentation and code for using containers with the KG-Hub platform.

  Dockerfile

  •

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

  •0•0•0•0•Updated Mar 12, 2025Mar 12, 2025

• uniprot2s3

  Public
  Python

  •

  MIT License

  •2•2•0•3•Updated Feb 15, 2025Feb 15, 2025

• kg-cookiecutter

  Public
  A cookiecutter template for KG generation.

  Python

  •

  MIT License

  •1•5•1•1•Updated Jan 27, 2025Jan 27, 2025

• kg-chat

  Public
  HTML

  •

  MIT License

  •1•8•0•1•Updated Dec 30, 2024Dec 30, 2024

• OBOFoundry.github.io

  Public
  OBO Fork for KGs

  obofoundryknowledge-graphs

  obofoundryknowledge-graphs

  Python

  •

  Other

  •218•2•0•0•Updated Dec 6, 2024Dec 6, 2024

• KG_Microbe_embeddings

  Public
  Jupyter Notebook

  •

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

  •0•0•0•0•Updated Sep 25, 2024Sep 25, 2024

• NEAT-kghub-scheduler

  Public
  Scheduling utility for starting NEAT jobs for KG-Hub resources.

  Python

  •

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

  •0•0•2•1•Updated Jun 11, 2024Jun 11, 2024

• kg-obo

  Public
  A package to transform all OBO ontologies into KGX TSV format and OBO json, and put the transformed graph in KGhub

  knowledge-graphobomonarchinitiative+ 3

  knowledge-graphobomonarchinitiativeobofoundrybiolinkontology-infrastructure

  Python

  •

  GNU General Public License v3.0

  •2•32•26•0•Updated Mar 19, 2024Mar 19, 2024

• kg-enp

  Public
  KG-ENP: a knowledge graph for experimental natural products, based off ENPKG

  Python

  •

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

  •0•5•0•1•Updated Jan 26, 2024Jan 26, 2024

• kg-hub-dashboard

  Public
  Dashboard visualizations for KG-Hub projects.

  dashboard

  dashboard

  Vue

  •

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

  •0•1•6•0•Updated Dec 11, 2023Dec 11, 2023

• kg-bacdive

  Public archive
  Knowledge graph construction for BacDive data

  Jupyter Notebook

  •0•1•0•1•Updated Oct 27, 2023Oct 27, 2023

• kg-covid-19

  Public
  An instance of KG Hub to produce a knowledge graph for COVID-19 response.

  monarchinitiative

  monarchinitiative

  Python

  •

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

  •26•84•98•5•Updated Aug 3, 2023Aug 3, 2023

• kg-idg

  Public
  A Knowledge Graph to Illuminate the Druggable Genome

  knowledge-graphmonarchinitiativebiolink+ 1

  knowledge-graphmonarchinitiativebiolinkdrug-target-interactions

  Jupyter Notebook

  •

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

  •2•9•6•0•Updated May 30, 2023May 30, 2023

• kg-ibd

  Public
  Python

  •

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

  •0•1•0•0•Updated May 10, 2023May 10, 2023

• knowledge-graph-hub-support

  Public
  Issues, support, and discussion for KG-Hub. Covers tools, infrastructure, and graph projects.

  Jupyter Notebook

  •

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

  •2•7•18•0•Updated May 5, 2023May 5, 2023

• kg-example

  Public template
  Example repository for KG-Hub projects. Provides examples for downloading sources, transforming them, and merging them into knowledge graphs.

  Python

  •

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

  •2•4•1•0•Updated May 3, 2023May 3, 2023

• kg-covid-19-dashboard

  Public
  Dashboard for KG-COVID-19

  dashboard

  dashboard

  Vue

  •2•0•2•0•Updated Jan 4, 2023Jan 4, 2023