Projects
Selected GitHub repositories accompanying papers and standalone passion projects. For more, visit my GitHub profile.
PIGLET
A graph transformer method operating on a knowledge graph of drugs and targets that predicts drug-target interaction. Accompanies Carpenter & Altman 2026, bioRxiv.
Zenodo 
HOTPocket
A dataset of small molecule binding pocket predictions over the whole human proteome and a method for assembling such a dataset using ensembling and a novel neural network scoring function. Accompanies Carpenter & Altman 2025, J Cheminf.
GPT-3 for drug slang lexicons
A dataset of LLM-generated slang terms and misspellings of drugs of abuse, and code to run a pipeline using GPT-3 and automated filters to generate similar lexicons. Accompanies Carpenter & Altman 2023, Biomolecules.
GitHub 4 2
TAYMACS
A passion project for the small but nonzero intersection of GROMACS users and Taylor Swift fans. Replaces the quotes at the end of successful GROMACS commands with Taylor Swift lyrics.
GitHub 0 0