INCATools

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43 repositories

semantic-sql
Public
SQL and SQLite builds of OWL ontologies
sql sparql owl
sql sparql owl ontologies monarchinitiative obofoundry linkml relation-graph oaklib ai4curation
Python
•
BSD 3-Clause "New" or "Revised" License
•6•57•14•0•Updated Feb 28, 2026Feb 28, 2026
ontology-development-kit
Public
Ontology lifecycle management
robot continuous-integration owl
robot continuous-integration owl ontology travis obo protege monarchinitiative obofoundry
Dockerfile
•
BSD 3-Clause "New" or "Revised" License
•57•304•82•1•Updated Feb 21, 2026Feb 21, 2026
whelk-rs
Public
Whelk is an OWL EL reasoner
rust semantic-web owl
rust semantic-web owl
Rust
•
MIT License
•6•16•5•3•Updated Feb 21, 2026Feb 21, 2026
ontology-access-kit
Public
Ontology Access Kit: A python library and command line application for working with ontologies
python rdf semantic-web
python rdf semantic-web owl ontology apis geneontology monarchinitiative obofoundry ontology-api
Python
•
Apache License 2.0
•33•159•171•13•Updated Feb 20, 2026Feb 20, 2026
odkcore
Public
Docker-less, core package for the Ontology Development Kit
semantic-web owl ontology
semantic-web owl ontology obofoundry ontology-development-kit
Jinja
•
BSD 3-Clause "New" or "Revised" License
•2•1•1•1•Updated Feb 18, 2026Feb 18, 2026
ubergraph
Public
Integrated OBO ontology store
rdf owl knowledge-graph
rdf owl knowledge-graph obofoundry ncats-translator
Makefile
•
BSD 3-Clause "New" or "Revised" License
•5•48•33•3•Updated Feb 13, 2026Feb 13, 2026
kgcl
Public
Datamodel for KGCL (Knowledge Graph Change Language)
rdf semantic-web linkml
rdf semantic-web linkml ontology-diffs ontology-changes kgcl
Python
•
MIT License
•4•21•32•3•Updated Feb 11, 2026Feb 11, 2026
odk-robot-plugin
Public
ROBOT plugin for the Ontology Development Kit
Java
•
BSD 3-Clause "New" or "Revised" License
•1•0•1•0•Updated Jan 28, 2026Jan 28, 2026
odkrunner
Public
A binary runner for the Ontology Development Kit
semantic-web owl ontology
semantic-web owl ontology obofoundry ontology-development-kit
C
•
Other
•0•4•0•0•Updated Jan 2, 2026Jan 2, 2026
dosdp-tools
Public
Utility for working with DOSDP design patterns and OWL ontologies
design-patterns owl ontology
design-patterns owl ontology odp monarchinitiative obofoundry dosdp-pattern
Scala
•
MIT License
•5•29•34•20•Updated Dec 10, 2025Dec 10, 2025
dead_simple_owl_design_patterns
Public
A simple system for specifying OWL class design patterns for OBO-ish ontologies.
templates ontology odp
templates ontology odp obofoundry
Python
•
GNU General Public License v3.0
•5•47•20•1•Updated Dec 10, 2025Dec 10, 2025
PandaSaurus
Public
Supporting simple queries over ontology annotations in dataframes, using UberGraph queries
Python
•
Apache License 2.0
•0•2•1•0•Updated Dec 2, 2025Dec 2, 2025
relation-graph
Public
Materialize OWL existential relations
rdf owl ontology
rdf owl ontology obofoundry
Scala
•
MIT License
•5•20•8•10•Updated Nov 12, 2025Nov 12, 2025
pandasaurus_cxg
Public
Ontology enrichment tool for CxG standard AnnData files
Jupyter Notebook
•
Apache License 2.0
•1•3•5•1•Updated Sep 15, 2025Sep 15, 2025
boomer
Public
Bayesian OWL ontology merging
owl mondo boomer
owl mondo boomer reasoning owl-ontology geneontology monarchinitiative obofoundry ontology-merging probabilistic-owl
Scala
•
BSD 3-Clause "New" or "Revised" License
•2•34•27•15•Updated Jun 4, 2025Jun 4, 2025
whelk
Public
Whelk is an OWL EL reasoner
Scala
•
BSD 3-Clause "New" or "Revised" License
•6•38•5•9•Updated Mar 5, 2025Mar 5, 2025
obographviz
Public
Customizable translation of OBO graphs to dot for visualization using graphviz and other tools
javascript graphviz json
javascript graphviz json node graph-visualization obofoundry obographs
JavaScript
•6•26•9•4•Updated Feb 21, 2025Feb 21, 2025
ontobot-change-agent
Public
A GitHub bot for modifying ontology resources.
bot ontology change-language
bot ontology change-language kgcl
Python
•
MIT License
•1•9•26•1•Updated Dec 1, 2024Dec 1, 2024
kgcl-rdflib
Public
Tools for working with KGCL
diffs diff semantic-diff
diffs diff semantic-diff rdf owl ontology knowledge-graph kg obofoundry linkml
Python
•
MIT License
•9•19•15•3•Updated Nov 19, 2024Nov 19, 2024
whelk-paper
Public
Code for Whelk performance analyses
Scala
•
MIT License
•0•1•0•0•Updated Oct 4, 2024Oct 4, 2024
verificado
Public
Python
•
Apache License 2.0
•0•1•0•0•Updated Jun 12, 2024Jun 12, 2024
biosample-analysis
Public
analysis of biosamples in INSDC
Jupyter Notebook
•1•3•26•1•Updated Feb 13, 2024Feb 13, 2024
rdf-sql-bulkloader
Public
Python
•1•1•1•0•Updated Mar 2, 2023Mar 2, 2023
oakx-grape
Public
Experimental OAK plugin for Grape
Python
•
BSD 3-Clause "New" or "Revised" License
•2•5•9•4•Updated Feb 10, 2023Feb 10, 2023
oakx-plugin-cookiecutter
Public
cookiecutter for OAK plugins
plugins cookiecutter oaklib
plugins cookiecutter oaklib
Python
•0•2•0•0•Updated Jan 11, 2023Jan 11, 2023
oakx-robot
Public
robot plugin for OAK
Python
•0•1•0•0•Updated Sep 29, 2022Sep 29, 2022
obo-shapes
Public
SHACL and ShEx shapes for validating OBO ontologies
Makefile
•
BSD 3-Clause "New" or "Revised" License
•0•0•0•0•Updated Apr 12, 2022Apr 12, 2022
.github
Public
0•0•0•0•Updated Apr 8, 2022Apr 8, 2022
owl_patternizer
Public
generate DOSDP patterns from OWL ontologies
Prolog
•
BSD 3-Clause "New" or "Revised" License
•2•2•0•0•Updated Feb 28, 2022Feb 28, 2022
DataHarmonizer
Public
A standardized browser-based spreadsheet editor and validator that can be run offline and locally, and which includes templates for SARS-CoV-2 sampling data.
JavaScript
•
MIT License
•34•0•0•0•Updated Dec 9, 2021Dec 9, 2021