Charles Tapley Hoyt (@cthoyt)
github

cthoyt

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Top repositories

1

class-resolver

πŸ” Lookup classes and instantiate them with style
Python
62
star
2

chembl-downloader

Write reproducible code for getting and processing ChEMBL
Jupyter Notebook
45
star
3

pystow

πŸ‘œ Easily pick a place to store data for your Python code.
Python
36
star
4

doctoral-thesis

πŸ“– Generation and Applications of Knowledge Graphs in Systems and Networks Biology
TeX
29
star
5

drugbank_downloader

Don't worry about DrugBank licensing - write code that knows how to download it automatically
Python
27
star
6

cookiecutter-snekpack

πŸͺ A cookiecutter package for an enlightened python package
Python
26
star
7

autoreviewer

πŸ‘οΈβ€πŸ—¨οΈ Scientists often do the same bad stuff. Automate giving feedback during peer review.
Python
21
star
8

umls_downloader

Don't worry about UMLS, RxNorm, SNOMED, or SemMedDB licensing - write code that knows how to download it automatically
Python
17
star
9

pyrdle

Play Wordle in the CLI. Write an algorithm to play Wordle for you. Ruin all of the fun you've been having.
Python
12
star
10

ols-client

🎑 Unified access to OLS instances like from the EBI and TIB
Python
11
star
11

zenodo-client

A tool for automated uploading and version management of scientific data to Zenodo
Python
10
star
12

onto2nx

Converts OWL ontologies and OBO to NetworkX Graphs
Python
9
star
13

curies4j

🐸 Idiomatic conversion between URIs and compact URIs (CURIEs)
Java
9
star
14

quickstatements_client

A data model and client for QuickStatements (for Wikidata)
Python
8
star
15

rhea-fingerprints

Automatically generate differential reaction fingerprints on reactions in Rhea
Python
6
star
16

pybacting

A Python wrapper around Bacting (https://github.com/egonw/bacting)
Python
6
star
17

more_click

Extra stuff for click I use in basically every repo
Python
5
star
18

geometric-graphs

Generate knowledge graphs with interesting geometries, like lattices
Python
5
star
19

nrl

Network Representation Learning in Python with igraph
Python
4
star
20

authorship

🚒 Generate publication-ready authorship lists via Google Sheets and more
Python
4
star
21

semantic-pydantic

Annotate data models in Pydantic and APIs in FastAPI with the Bioregistry to make them more FAIR
Python
4
star
22

ontoportal-client

🎑 Unified access to OntoPortal instances like BioPortal, AgroPortal, and EcoPortal
Python
4
star
23

cthoyt.github.io

My personal website, served at https://cthoyt.com
HTML
3
star
24

nsockg

"Not Scared of Chemistry" Knowledge Graph
Python
3
star
25

opencheck-embed

Graph-based embedding of Twitter followers in OpenCheck
Python
3
star
26

orcid_downloader

Get ORCID in bulk and free it from XML
Python
3
star
27

unittest-templates

Write less unittest boilerplate
Python
3
star
28

twin-identifier-analysis

How many local unique identifiers overlap between each biomedical vocabulary in the Bioregistry?
Jupyter Notebook
2
star
29

citation-url

Parse URLs for DOIs, PubMed identifiers, PMC identifiers, arXiv identifiers, etc.
Python
2
star
30

obo-community-health

πŸ«€ Check the OBO Foundry repositories to see what's going on
Python
2
star
31

rorio

Convert the Research Organization Registry (ROR) into an OWL instance ontology
Python
2
star
32

orcidio

🐨 Make a subset of ORCID available as an OWL ontology
Python
2
star
33

depmap_downloader

Reproducibly download the latest version of various DepMap datasets
Python
2
star
34

flask-celery-docker-demo

A short demo on how to process files with Flask and Celery inside Docker
Python
2
star
35

embeddingdb

A database for storing and comparing entity embeddings
Python
1
star
36

chemrxiv-summarize

Summarize usage of ChemRxiv by using Figshare's API endpoint
Python
1
star
37

vsmo

Revival of the Vector Surveillance and Management Ontology
1
star
38

chendi

Chemical Entities of Neurodegenerative Disease Interest
1
star
39

schoolwork

✎ Code I've written for classes in school
Racket
1
star
40

translational-toys

Knowledge graphs representing geometric shapes matched to knowledge graph embedding models to learn them
Python
1
star
41

biocuration-diversity-search

Find biocurators that aren't from Australia, Canada, USA, or western Europe
Python
1
star
42

dotfiles

My dot files
Python
1
star
43

biomodels-metadata-analysis

Generate a summary of metadata annotations in the BioModels database
Python
1
star
44

more_node2vec

Python
1
star
45

pydeogram

Generate Ideograms using ideogram.js in Python
Python
1
star
46

obo-foundry-graph

Demonstrate combining all OBO Foundry ontologies via Bioregistry, Bioontologies, and ROBOT
Python
1
star
47

n2t-ark-resolver

Re-implement N2T's ARK resolver using curies (https://github.com/cthoyt/curies/)
Python
1
star
48

apicuron-client

A python client for interacting with the APICURON curation metadatabase's RESTful API
Python
1
star
49

flask-dance-with-redirects

Extend Flask-Dance to handle URL redirects
Python
1
star