obophenotype

All

65 repositories

uberon
Public
An ontology of gross anatomy covering metazoa. Works in concert with https://github.com/obophenotype/cell-ontology
ontology anatomy uberon
ontology anatomy uberon metazoa geneontology monarchinitiative obofoundry anatomy-ontology gross-anatomy
Emacs Lisp
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Other
•39•155•302•20•Updated Apr 23, 2026Apr 23, 2026
developmental-mouse-anatomy-ontology
Public
Ontologies for mouse anatomy and development
mouse anatomy obofoundry
mouse anatomy obofoundry
Makefile
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Other
•4•5•57•0•Updated Apr 22, 2026Apr 22, 2026
cell-ontology
Public
An ontology of cell types
genomics semantic-web owl
genomics semantic-web owl ontology transcriptomics anatomy metazoa monarchinitiative obofoundry cell-ontology
Makefile
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Creative Commons Attribution 4.0 International
•60•196•295•26•Updated Apr 21, 2026Apr 21, 2026
ascomycete-phenotype-ontology
Public
ontology phenotype fungal
ontology phenotype fungal obofoundry phenotype-ontology ascomycete
Shell
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Creative Commons Attribution 4.0 International
•6•4•1•0•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
•4•4•4•2•Updated Apr 20, 2026Apr 20, 2026
sibo
Public
Social Insect Behavior Ontology
ontology obofoundry
ontology obofoundry
3•3•8•0•Updated Apr 20, 2026Apr 20, 2026
c-elegans-development-ontology
Public
C. elegans Development Ontology
development ontology obofoundry
development ontology obofoundry nematodes wormbase caenorhabditis-elegans
Makefile
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Creative Commons Attribution 4.0 International
•2•5•0•0•Updated Apr 16, 2026Apr 16, 2026
human-phenotype-ontology
Public
Ontology for the description of human clinical features
semantic-web owl ontology
semantic-web owl ontology obo phenotyping phenotype ontologies hpo monarchinitiative obofoundry
Makefile
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Other
•65•353•131•9•Updated Apr 16, 2026Apr 16, 2026
c-elegans-phenotype-ontology
Public
Ontology for phenotypes pertaining to the nematode Caenorhabditis elegans and related nematodes used by the nematode genome database WormBase
ontology phenotypes elegans
ontology phenotypes elegans phenotype-ontologies obofoundry nematodes caenorhabditis-elegans elegans-phenotype-ontology phenotype-term
Makefile
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Creative Commons Attribution 4.0 International
•4•11•3•0•Updated Apr 16, 2026Apr 16, 2026
hpo-translations
Public
This repo will contain the Human Phenotype Ontology language profiles
i18n localization localisation
i18n localization localisation ontologies hpo obofoundry
Makefile
•5•6•10•0•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
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Creative Commons Zero v1.0 Universal
•21•86•279•28•Updated Apr 7, 2026Apr 7, 2026
c-elegans-gross-anatomy-ontology
Public
C. elegans Gross Anatomy Ontology
ontology anatomy obofoundry
ontology anatomy obofoundry caenorhabditis-elegans
Makefile
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Creative Commons Attribution 4.0 International
•2•7•6•0•Updated Mar 11, 2026Mar 11, 2026
adult-mouse-anatomy-ontology
Public
The Home of the (Adult) Mouse Anatomy ontology
Makefile
•0•0•0•0•Updated Feb 24, 2026Feb 24, 2026
pro_obo_slim
Public
A repo to generate a pro slim for the OBO phenotype organisation
Makefile
•1•1•0•0•Updated Feb 23, 2026Feb 23, 2026
zebrafish-phenotype-ontology
Public
A vocabulary for describing Zebrafish Phenotypes
ontology anatomy zebrafish
ontology anatomy zebrafish obofoundry anatomy-ontology developmental-stages
Python
•7•9•21•2•Updated Feb 18, 2026Feb 18, 2026
bio-attribute-ontology
Public
source files for OBA (Ontology of Biological Attributes)
traits phenotypes monarchinitiative
traits phenotypes monarchinitiative phenotype-ontologies obofoundry
Jupyter Notebook
•
Creative Commons Zero v1.0 Universal
•12•29•89•9•Updated Jan 21, 2026Jan 21, 2026
caro
Public
Working repository for v2 of CARO
obofoundry
obofoundry
Makefile
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Creative Commons Attribution 4.0 International
•4•3•20•0•Updated Jan 19, 2026Jan 19, 2026
cephalopod-ontology
Public
An ontology of cephalopod anatomy and traits
semantic-web owl ontology
semantic-web owl ontology nautilus squid anatomy octopus obofoundry cuttlefish cephalopod
Makefile
•7•5•7•0•Updated Jan 7, 2026Jan 7, 2026
ncbitaxon
Public
Build for NCBITaxon
taxonomy ontology ncbi-taxonomy
taxonomy ontology ncbi-taxonomy obofoundry
Python
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BSD 3-Clause "New" or "Revised" License
•8•31•27•1•Updated Dec 14, 2025Dec 14, 2025
developmental-stage-ontologies
Public
Source files for various species-specific stage ontologies
owl ontology anatomy
owl ontology anatomy obofoundry anatomy-ontology developmental-stages
Makefile
•6•11•57•1•Updated Aug 6, 2025Aug 6, 2025
upheno-dev
Public archive
Framework for the automated construction of uPheno 2.0
Jupyter Notebook
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MIT License
•5•5•0•7•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.
ontology phenotype xpo
ontology phenotype xpo obofoundry xenopus-phenotype-ontology xenopus
Makefile
•3•11•17•0•Updated Jul 25, 2025Jul 25, 2025
fungal-anatomy-ontology
Public
A structured controlled vocabulary for the anatomy of fungi
ontology fungi anatomy
ontology fungi anatomy obofoundry anatomy-ontology
Makefile
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Creative Commons Zero v1.0 Universal
•5•11•8•0•Updated Jul 15, 2025Jul 15, 2025
provisional_cell_ontology
Public
Draft cell type definitions from data - candidates for inclusion in CL
ontology transcriptomics single-cell-rna-seq
ontology transcriptomics single-cell-rna-seq single-cell-analysis obofoundry cell-ontology cell-types
Makefile
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Creative Commons Attribution 4.0 International
•1•12•19•0•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
metadata ontology neuron
metadata ontology neuron brain neuroanatomy obofoundry cell-types brain-data anatomy-ontology
Python
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Apache License 2.0
•3•12•28•4•Updated Jul 4, 2025Jul 4, 2025
uberon-robot-plugin
Public
Extra ROBOT commands for Uberon
Java
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BSD 3-Clause "New" or "Revised" License
•1•0•0•0•Updated Jul 2, 2025Jul 2, 2025
test-actions
Public
0•0•0•1•Updated Nov 13, 2024Nov 13, 2024
CCF_graphs
Public
Python
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MIT License
•0•0•0•0•Updated Oct 11, 2024Oct 11, 2024
vccf-ontology
Public
Makefile
•0•1•6•0•Updated Jun 4, 2024Jun 4, 2024
pattern-review
Public
Python
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MIT License
•0•1•4•3•Updated Mar 1, 2024Mar 1, 2024

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