loodvn

transformers

🤗 Transformers: State-of-the-art Machine Learning for Pytorch, TensorFlow, and JAX.

tqdm

:zap: A Fast, Extensible Progress Bar for Python and CLI

llm.c

LLM training in simple, raw C/CUDA

fauxpilot

FauxPilot - an open-source alternative to GitHub Copilot server

mamba

The Fast Cross-Platform Package Manager

pandas-cookbook

Recipes for using Python's pandas library

FriendsDontLetFriends

Friends don't let friends make certain types of data visualization - What are they and why are they bad.

biopython

Official git repository for Biopython (originally converted from CVS)

lightning-hydra-template

PyTorch Lightning + Hydra. A very user-friendly template for ML experimentation. ⚡🔥⚡

rethinking

Statistical Rethinking course and book package

ColabFold

Making Protein folding accessible to all!

pynndescent

A Python nearest neighbor descent for approximate nearest neighbors

protein_bert

rusty-krab-manager

🕰️ - time management tui in rust

ProteinGym

Official repository for the ProteinGym benchmarks

gp

A tutorial about Gaussian process regression

EVE

Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Joint collaboration between the Marks lab and the OATML group.

scPerturb

scPerturb: A resource and a python/R tool for single-cell perturbation data

fine

Ready-to-use Fine AI agents for automating development workflows

ProteinNPT

Official code repository for the paper "ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers"

lambo

Code to reproduce experiments in "Accelerating Bayesian Optimization for Protein Design with Denoising Autoencoders" (Stanton et al 2022)

PoET

Inference code for PoET: A generative model of protein families as sequences-of-sequences

numba-progress

A progress bar implementation in numba using tqdm.

cdna-display-proteolysis-pipeline

async-files

A Fast, lightweight, and extensible asyncio file library

jupyter-o2

Run Jupyter on Orchestra 2

popEVE

bioviper

Enhancements to Biopython for working with biological data

dotfiles

KirDMS

Kir2.1 Deep Mutational Scanning Dataset