Repositories list

• ascomycete-phenotype-ontology

  Public
  ontologyphenotypefungal+ 3

  ontologyphenotypefungalobofoundryphenotype-ontologyascomycete

  Shell

  •

  Creative Commons Attribution 4.0 International

  •66 forks•44 stars•11 issue•00 pull requests•Updated Apr 20, 2026Apr 20, 2026

• chebi_obo_slim

  Public
  A slimmed down version of CHEBI sufficient to cover 99% of the term needs across OBO ontologies

  obofoundry

  obofoundry

  Ruby

  •44 forks•44 stars•44 issues•22 pull requests•Updated Apr 20, 2026Apr 20, 2026

• cell-ontology

  Public

  obophenotype/cell-ontology’s past year of commit activity
  An ontology of cell types

  genomicssemantic-webowl+ 9

  genomicssemantic-webowlontologytranscriptomicsanatomymetazoamonarchinitiativeobofoundrycell-ontology+ 2

  Makefile

  •

  Creative Commons Attribution 4.0 International

  •6060 forks•196196 stars•295295 issues•2626 pull requests•Updated Apr 20, 2026Apr 20, 2026

• sibo

  Public

  obophenotype/sibo’s past year of commit activity
  Social Insect Behavior Ontology

  ontologyobofoundry

  ontologyobofoundry

  33 forks•33 stars•88 issues•00 pull requests•Updated Apr 20, 2026Apr 20, 2026

• c-elegans-development-ontology

  Public

  obophenotype/c-elegans-development-ontology’s past year of commit activity
  C. elegans Development Ontology

  developmentontologyobofoundry+ 3

  developmentontologyobofoundrynematodeswormbasecaenorhabditis-elegans

  Makefile

  •

  Creative Commons Attribution 4.0 International

  •22 forks•55 stars•00 issues•00 pull requests•Updated Apr 16, 2026Apr 16, 2026

• human-phenotype-ontology

  Public

  obophenotype/human-phenotype-ontology’s past year of commit activity
  Ontology for the description of human clinical features

  semantic-webowlontology+ 7

  semantic-webowlontologyobophenotypingphenotypeontologieshpomonarchinitiativeobofoundry

  Makefile

  •

  Other

  •6565 forks•352352 stars•128128 issues•99 pull requests•Updated Apr 16, 2026Apr 16, 2026

• c-elegans-phenotype-ontology

  Public

  obophenotype/c-elegans-phenotype-ontology’s past year of commit activity
  Ontology for phenotypes pertaining to the nematode Caenorhabditis elegans and related nematodes used by the nematode genome database WormBase

  ontologyphenotypeselegans+ 6

  ontologyphenotypeselegansphenotype-ontologiesobofoundrynematodescaenorhabditis-eleganselegans-phenotype-ontologyphenotype-term

  Makefile

  •

  Creative Commons Attribution 4.0 International

  •44 forks•1111 stars•33 issues•00 pull requests•Updated Apr 16, 2026Apr 16, 2026

• uberon

  Public

  obophenotype/uberon’s past year of commit activity
  An ontology of gross anatomy covering metazoa. Works in concert with https://github.com/obophenotype/cell-ontology

  ontologyanatomyuberon+ 6

  ontologyanatomyuberonmetazoageneontologymonarchinitiativeobofoundryanatomy-ontologygross-anatomy

  Emacs Lisp

  •

  Other

  •3939 forks•154154 stars•306306 issues•2121 pull requests•Updated Apr 13, 2026Apr 13, 2026

• hpo-translations

  Public

  obophenotype/hpo-translations’s past year of commit activity
  This repo will contain the Human Phenotype Ontology language profiles

  i18nlocalizationlocalisation+ 3

  i18nlocalizationlocalisationontologieshpoobofoundry

  Makefile

  •55 forks•66 stars•1010 issues•00 pull requests•Updated Apr 8, 2026Apr 8, 2026

• developmental-mouse-anatomy-ontology

  Public

  obophenotype/developmental-mouse-anatomy-ontology’s past year of commit activity
  Ontologies for mouse anatomy and development

  mouseanatomyobofoundry

  mouseanatomyobofoundry

  Makefile

  •

  Other

  •44 forks•55 stars•5757 issues•00 pull requests•Updated Apr 8, 2026Apr 8, 2026

• upheno

  Public
  The Unified Phenotype Ontology (uPheno) integrates multiple phenotype ontologies into a unified cross-species phenotype ontology.

  obofoundry

  obofoundry

  Jupyter Notebook

  •

  Creative Commons Zero v1.0 Universal

  •2121 forks•8686 stars•279279 issues•2828 pull requests•Updated Apr 7, 2026Apr 7, 2026

• c-elegans-gross-anatomy-ontology

  Public
  C. elegans Gross Anatomy Ontology

  ontologyanatomyobofoundry+ 1

  ontologyanatomyobofoundrycaenorhabditis-elegans

  Makefile

  •

  Creative Commons Attribution 4.0 International

  •22 forks•77 stars•66 issues•00 pull requests•Updated Mar 11, 2026Mar 11, 2026

• adult-mouse-anatomy-ontology

  Public
  The Home of the (Adult) Mouse Anatomy ontology

  Makefile

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 24, 2026Feb 24, 2026

• pro_obo_slim

  Public
  A repo to generate a pro slim for the OBO phenotype organisation

  Makefile

  •11 fork•11 star•00 issues•00 pull requests•Updated Feb 23, 2026Feb 23, 2026

• zebrafish-phenotype-ontology

  Public
  A vocabulary for describing Zebrafish Phenotypes

  ontologyanatomyzebrafish+ 3

  ontologyanatomyzebrafishobofoundryanatomy-ontologydevelopmental-stages

  Python

  •77 forks•99 stars•2121 issues•22 pull requests•Updated Feb 18, 2026Feb 18, 2026

• bio-attribute-ontology

  Public
  source files for OBA (Ontology of Biological Attributes)

  traitsphenotypesmonarchinitiative+ 2

  traitsphenotypesmonarchinitiativephenotype-ontologiesobofoundry

  Jupyter Notebook

  •

  Creative Commons Zero v1.0 Universal

  •1212 forks•2929 stars•8989 issues•99 pull requests•Updated Jan 21, 2026Jan 21, 2026

• caro

  Public
  Working repository for v2 of CARO

  obofoundry

  obofoundry

  Makefile

  •

  Creative Commons Attribution 4.0 International

  •44 forks•33 stars•2020 issues•00 pull requests•Updated Jan 19, 2026Jan 19, 2026

• cephalopod-ontology

  Public
  An ontology of cephalopod anatomy and traits

  semantic-webowlontology+ 9

  semantic-webowlontologynautilussquidanatomyoctopusobofoundrycuttlefishcephalopod+ 2

  Makefile

  •77 forks•55 stars•77 issues•00 pull requests•Updated Jan 7, 2026Jan 7, 2026

• ncbitaxon

  Public
  Build for NCBITaxon

  taxonomyontologyncbi-taxonomy+ 1

  taxonomyontologyncbi-taxonomyobofoundry

  Python

  •

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

  •88 forks•3131 stars•2727 issues•11 pull request•Updated Dec 14, 2025Dec 14, 2025

• developmental-stage-ontologies

  Public
  Source files for various species-specific stage ontologies

  owlontologyanatomy+ 3

  owlontologyanatomyobofoundryanatomy-ontologydevelopmental-stages

  Makefile

  •66 forks•1111 stars•5757 issues•11 pull request•Updated Aug 6, 2025Aug 6, 2025

• upheno-dev

  Public archive
  Framework for the automated construction of uPheno 2.0

  Jupyter Notebook

  •

  MIT License

  •55 forks•55 stars•00 issues•77 pull requests•Updated Jul 31, 2025Jul 31, 2025

• xenopus-phenotype-ontology

  Public
  XPO represents anatomical, cellular, and gene function phenotypes occurring throughout the development of the African frogs Xenopus laevis and X. tropicalis.

  ontologyphenotypexpo+ 3

  ontologyphenotypexpoobofoundryxenopus-phenotype-ontologyxenopus

  Makefile

  •33 forks•1111 stars•1717 issues•00 pull requests•Updated Jul 25, 2025Jul 25, 2025

• fungal-anatomy-ontology

  Public
  A structured controlled vocabulary for the anatomy of fungi

  ontologyfungianatomy+ 2

  ontologyfungianatomyobofoundryanatomy-ontology

  Makefile

  •

  Creative Commons Zero v1.0 Universal

  •55 forks•1111 stars•88 issues•00 pull requests•Updated Jul 15, 2025Jul 15, 2025

• provisional_cell_ontology

  Public
  Draft cell type definitions from data - candidates for inclusion in CL

  ontologytranscriptomicssingle-cell-rna-seq+ 4

  ontologytranscriptomicssingle-cell-rna-seqsingle-cell-analysisobofoundrycell-ontologycell-types

  Makefile

  •

  Creative Commons Attribution 4.0 International

  •11 fork•1212 stars•1919 issues•00 pull requests•Updated Jul 8, 2025Jul 8, 2025

• brain_data_standards_ontologies

  Public
  A repository for co-ordinating work on ontologies for the Brain Data Standards Project

  metadataontologyneuron+ 6

  metadataontologyneuronbrainneuroanatomyobofoundrycell-typesbrain-dataanatomy-ontology

  Python

  •

  Apache License 2.0

  •33 forks•1212 stars•2828 issues•44 pull requests•Updated Jul 4, 2025Jul 4, 2025

• uberon-robot-plugin

  Public
  Extra ROBOT commands for Uberon

  Java

  •

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

  •11 fork•00 stars•00 issues•00 pull requests•Updated Jul 2, 2025Jul 2, 2025

• test-actions

  Public
  00 forks•00 stars•00 issues•11 pull request•Updated Nov 13, 2024Nov 13, 2024

• CCF_graphs

  Public
  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 11, 2024Oct 11, 2024

• vccf-ontology

  Public
  Makefile

  •00 forks•11 star•66 issues•00 pull requests•Updated Jun 4, 2024Jun 4, 2024

• pattern-review

  Public
  Python

  •

  MIT License

  •00 forks•11 star•44 issues•33 pull requests•Updated Mar 1, 2024Mar 1, 2024