Pinned Repositories
bioregistry
📮 An integrative registry of biological databases, ontologies, and nomenclatures.
pyobo
📛 A Python package for using ontologies, terminologies, and biomedical nomenclatures
chembl-downloader
Write reproducible code for getting and processing ChEMBL
class-resolver
🔍 Lookup classes and instantiate them with style
cookiecutter-snekpack
🍪 A cookiecutter package for an enlightened python package
drugbank-downloader
Don't worry about DrugBank licensing - write code that knows how to download it automatically
pystow
👜 Easily pick a place to store data for your Python code.
umls_downloader
Don't worry about UMLS, RxNorm, SNOMED, or SemMedDB licensing - write code that knows how to download it automatically
pybel
🌶️ An ecosystem in Python for working with the Biological Expression Language (BEL)
pykeen
🤖 A Python library for learning and evaluating knowledge graph embeddings
cthoyt's Repositories
cthoyt/class-resolver
🔍 Lookup classes and instantiate them with style
cthoyt/drugbank-downloader
Don't worry about DrugBank licensing - write code that knows how to download it automatically
cthoyt/pystow
👜 Easily pick a place to store data for your Python code.
cthoyt/cookiecutter-snekpack
🍪 A cookiecutter package for an enlightened python package
cthoyt/zenodo-client
A tool for automated uploading and version management of scientific data to Zenodo
cthoyt/quickstatements_client
A data model and client for QuickStatements (for Wikidata)
cthoyt/orcid_downloader
Get ORCID in bulk and free it from XML
cthoyt/semantic-pydantic
Annotate data models in Pydantic and APIs in FastAPI with the Bioregistry to make them more FAIR
cthoyt/cthoyt.github.io
My personal website, served at https://cthoyt.com
cthoyt/obo-community-health
🫀 Check the OBO Foundry repositories to see what's going on
cthoyt/orcidio
🐨 Make a subset of ORCID available as an OWL ontology
cthoyt/fairsharing-client
A client to the FAIRsharing API
cthoyt/Biological_Imaging_Methods_Ontology
A structured controlled vocabulary of sample preparation, visualization and imaging methods used in biomedical research.
cthoyt/biotools-client
cthoyt/compact-ids-in-reports
Write up on how to use compact identifiers in project reports.
cthoyt/docdata
Add structured information to the end of your python docstrings
cthoyt/efo
Github repo for the Experimental Factor Ontology (EFO)
cthoyt/inara
Tools to create JOSS/JOSE publishing artifacts
cthoyt/jax-smfsb
SMfSB code in JAX
cthoyt/mypy
Optional static typing for Python
cthoyt/pandoc
Universal markup converter
cthoyt/pyLoDStorage
python List of Dict (Table) Storage library
cthoyt/rdkit-blog-1
RDKit blog
cthoyt/ro-summary
Scripts for generating summaries of the Relation Ontology
cthoyt/scholia
Wikidata scholarly profiles
cthoyt/sibo
Social Insect Behavior Ontology
cthoyt/snapquery
Frontend to Introduce Named Queries and Named Query Middleware to wikidata
cthoyt/snekpack-demo
Demonstrates using the cookecutter-snekpack template.
cthoyt/uv
An extremely fast Python package and project manager, written in Rust.
cthoyt/vertebrate-breed-ontology