obophenotype

All

63 repositories

upheno
Public
The Unified Phenotype Ontology (uPheno) integrates multiple phenotype ontologies into a unified cross-species phenotype ontology.
obofoundry
Makefile
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Creative Commons Zero v1.0 Universal
•17•76•244•16•Updated Nov 29, 2024Nov 29, 2024
uberon
Public
An ontology of gross anatomy covering metazoa. Works in concert with https://github.com/obophenotype/cell-ontology
ontology anatomy uberon metazoa geneontology monarchinitiative obofoundry anatomy-ontology gross-anatomy
Emacs Lisp
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Other
•30•135•298•20•Updated Nov 29, 2024Nov 29, 2024
cell-ontology
Public
An ontology of cell types
genomics semantic-web owl ontology transcriptomics anatomy metazoa monarchinitiative obofoundry cell-ontology
Makefile
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Creative Commons Attribution 4.0 International
•49•146•267•19•Updated Nov 29, 2024Nov 29, 2024
bio-attribute-ontology
Public
source files for OBA (Ontology of Biological Attributes)
traits phenotypes monarchinitiative phenotype-ontologies obofoundry
Jupyter Notebook
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Creative Commons Zero v1.0 Universal
•11•27•79•7•Updated Nov 26, 2024Nov 26, 2024
ncbitaxon
Public
Build for NCBITaxon
taxonomy ontology ncbi-taxonomy obofoundry
Python
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BSD 3-Clause "New" or "Revised" License
•7•27•28•1•Updated Nov 25, 2024Nov 25, 2024
human-phenotype-ontology
Public
Ontology for the description of human clinical features
semantic-web owl ontology obo phenotyping phenotype ontologies hpo monarchinitiative obofoundry
Makefile
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Other
•51•295•256•8•Updated Nov 24, 2024Nov 24, 2024
pro_obo_slim
Public
A repo to generate a pro slim for the OBO phenotype organisation
Makefile
•1•1•0•0•Updated Nov 23, 2024Nov 23, 2024
chebi_obo_slim
Public
A slimmed down version of CHEBI sufficient to cover 99% of the term needs across OBO ontologies
Ruby
•1•2•2•2•Updated Nov 23, 2024Nov 23, 2024
upheno-dev
Public
Framework for the automated construction of uPheno 2.0
Jupyter Notebook
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MIT License
•5•5•33•7•Updated Nov 20, 2024Nov 20, 2024
sibo
Public
Social Insect Behavior Ontology
ontology obofoundry
2•2•7•0•Updated Nov 13, 2024Nov 13, 2024
test-actions
Public
0•0•0•1•Updated Nov 13, 2024Nov 13, 2024
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.
phenotype xpo obofoundry xenopus ontology xenopus-phenotype-ontology
Makefile
•3•8•20•0•Updated Nov 7, 2024Nov 7, 2024
ascomycete-phenotype-ontology
Public
ontology phenotype fungal obofoundry phenotype-ontology ascomycete
Shell
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Creative Commons Attribution 4.0 International
•3•4•1•0•Updated Oct 23, 2024Oct 23, 2024
developmental-stage-ontologies
Public
Source files for various species-specific stage ontologies
owl ontology anatomy obofoundry anatomy-ontology developmental-stages
Makefile
•5•10•49•3•Updated Oct 12, 2024Oct 12, 2024
CCF_graphs
Public
Python
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MIT License
•0•0•0•0•Updated Oct 11, 2024Oct 11, 2024
hpo-translations
Public
This repo will contain the Human Phenotype Ontology language profiles
localisation ontologies hpo obofoundry i18n localization
Makefile
•2•4•9•1•Updated Oct 9, 2024Oct 9, 2024
c-elegans-phenotype-ontology
Public
Ontology for phenotypes pertaining to the nematode Caenorhabditis elegans and related nematodes used by the nematode genome database WormBase
phenotypes phenotype-ontologies obofoundry caenorhabditis-elegans ontology elegans nematodes elegans-phenotype-ontology phenotype-term
Makefile
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Creative Commons Attribution 4.0 International
•4•11•3•0•Updated Sep 26, 2024Sep 26, 2024
c-elegans-development-ontology
Public
C. elegans Development Ontology
development obofoundry caenorhabditis-elegans ontology nematodes wormbase
Makefile
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Creative Commons Attribution 4.0 International
•2•5•0•0•Updated Sep 26, 2024Sep 26, 2024
c-elegans-gross-anatomy-ontology
Public
C. elegans Gross Anatomy Ontology
anatomy obofoundry caenorhabditis-elegans ontology
Makefile
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Creative Commons Attribution 4.0 International
•2•7•7•0•Updated Sep 24, 2024Sep 24, 2024
brain_data_standards_ontologies
Public
A repository for co-ordinating work on ontologies for the Brain Data Standards Project
metadata neuron brain neuroanatomy obofoundry cell-types brain-data anatomy-ontology ontology
Python
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Apache License 2.0
•3•11•29•4•Updated Jul 12, 2024Jul 12, 2024
provisional_cell_ontology
Public
Draft cell type definitions from data - candidates for inclusion in CL
transcriptomics single-cell-rna-seq single-cell-analysis obofoundry cell-ontology cell-types ontology
Makefile
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Creative Commons Attribution 4.0 International
•1•12•19•0•Updated Jul 11, 2024Jul 11, 2024
vccf-ontology
Public
Makefile
•0•1•6•0•Updated Jun 4, 2024Jun 4, 2024
zebrafish-phenotype-ontology
Public
A vocabulary for describing Zebrafish Phenotypes
ontology anatomy zebrafish obofoundry anatomy-ontology developmental-stages
Python
•3•9•20•1•Updated Apr 18, 2024Apr 18, 2024
pattern-review
Public
Python
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MIT License
•0•1•4•3•Updated Mar 1, 2024Mar 1, 2024
cephalopod-ontology
Public
An ontology of cephalopod anatomy and traits
semantic-web owl ontology nautilus squid anatomy octopus obofoundry cuttlefish cephalopod
Makefile
•5•3•7•0•Updated Feb 29, 2024Feb 29, 2024
human-developmental-anatomy-ontology
Public
Ontology of human developmental anatomy
human ontology anatomy uberon metazoa developmental-biology obofoundry anatomy-ontology developmental-stages
Makefile
•4•5•12•0•Updated Jan 12, 2024Jan 12, 2024
dicty-phenotype-ontology
Public
Dicty Phenotype Ontology
obofoundry ontology phenotypes
Makefile
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Creative Commons Zero v1.0 Universal
•3•6•2•3•Updated Dec 14, 2023Dec 14, 2023
mouse-anatomy-ontology
Public
Ontologies for mouse anatomy and development
mouse anatomy obofoundry
Makefile
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Other
•3•5•58•3•Updated Nov 14, 2023Nov 14, 2023
spider-ontology
Public
An ontology for spider comparative biology including anatomical parts (e.g. leg, claw), behavior (e.g. courtship, combing), and products (e.g. silk, web, burrow).
obofoundry
1•3•0•0•Updated Sep 4, 2023Sep 4, 2023
biological-spatial-ontology
Public
An ontology for respresenting spatial concepts, anatomical axes, gradients, regions, planes, sides, and surfaces
spatial anatomy metazoa obofoundry anatomy-ontology
Makefile
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Other
•5•13•12•0•Updated May 31, 2023May 31, 2023