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/rhea-fingerprints
Automatically generate differential reaction fingerprints on reactions in Rhea
cthoyt/opencheck-embed
Graph-based embedding of Twitter followers in OpenCheck
cthoyt/twin-identifier-analysis
How many local unique identifiers overlap between each biomedical vocabulary in the Bioregistry?
cthoyt/biocuration-diversity-search
Find biocurators that aren't from Australia, Canada, USA, or western Europe
cthoyt/n2t-ark-resolver
Re-implement N2T's ARK resolver using curies (https://github.com/cthoyt/curies/)
cthoyt/.github
cthoyt/ascomycete-phenotype-ontology
cthoyt/biomappings
🗺️ Community curated and predicted equivalences and related mappings between named biological entities that are not available from primary sources.
cthoyt/bootstrap-flask
Bootstrap 4 & 5 helper for your Flask projects.
cthoyt/caro
Working repository for v2 of CARO
cthoyt/CLO
Communitiy-based Cell Line Ontology
cthoyt/CVDO
Cardiovascular disease ontology
cthoyt/drfp
An NLP-inspired chemical reaction fingerprint based on basic set arithmetic.
cthoyt/earth-metabolome-initiative.github.io
The EMI website
cthoyt/eiffel-ontology
EIFFEL ontologies (EIFF-O, EO taxonomy, ECV taxonomy and SDG taxonomy) and tools for the EIFFEL project.
cthoyt/fairsharing.github.io
The website for FAIRsharing, currently running at https://fairsharing.org.
cthoyt/go-site
A collection of metadata, tools, and files associated with the Gene Ontology public web presence.
cthoyt/iwatobipen-playground
cthoyt/LABO
An ontology of informational entities about laboratory tests prescriptions and reports.
cthoyt/MPIO
Minimum PDDI Information Ontology
cthoyt/ncro
Non-Coding RNA Ontology
cthoyt/ols4
The upcoming next version of the Ontology Lookup Service (OLS)
cthoyt/ORION
Code that parses datasets from various sources and converts them to load graph databases.
cthoyt/rdf-sql-bulkloader
cthoyt/rdflib
RDFLib is a Python library for working with RDF, a simple yet powerful language for representing information.
cthoyt/rdkit_blog
RDKit related blog posts, notebooks, and data.
cthoyt/rxno
Name Reaction Ontology
cthoyt/semantic-mapping-vocabulary
https://mapping-commons.github.io/semantic-mapping-vocabulary/
cthoyt/sib-controlled-vocabularies
Controlled vocabularies used in neXtProt - From SIB CALIPHO group; neXtProt project
cthoyt/warehouse
The Python Package Index