Alex Carlin's repositories
bagel-project
How to build a large dataset of enzyme variants to evaluate enzyme design algorithms
protein-transformers
Use generative ML to design new proteins using this simple, hackable implementation of protein transformer models
bglb_family
Quantitative prediction of mutant function across an enzyme family
bigboogie.info
The code for "bigboogie.info", Alex's essays about guitar playing
deep-learning-biology
Resources for deep learning in bioengineering with a focus on proteins
enzyme-design-kit
Tools for enzyme engineers
protein-sedd
Based on: Lou+ [ICML 2024 Best Paper] Discrete Diffusion Modeling by Estimating the Ratios of the Data Distribution (https://arxiv.org/abs/2310.16834)
protein-transformers-from-scratch
Video lecture series on building generative ML models for protein sequences from scratch
pymol-powerpack
A powerup for your PyMOL
albums
Local music player with great keyboard support
bagel-eval
A tough eval for protein design with generative ML
biotite
A comprehensive library for computational molecular biology
carlin-cookbook
Carlin Family Cookbook
carlingardens.com
Website for Carlin Gardens
graph-protein-design
Generative protein design with graph-structured transformers
inkisbetter.com
Alex's personal web site
molecule-language-models
Transformer models for generative modeling of bioactive chemical small molecules
neat_sequencing
Dense multiplexed PacBio sequencing for synthetic biology
protein-design-graph-attention-network
Protein design with graph attention networks (GATs)
protein-graph-neural-networks
Graph neural networks for biomolecules
sonoma.systems
Marketing website for Sonoma Systems
trotsky
A Slack bot