leeyang

openai-translator

基于 ChatGPT API 的划词翻译浏览器插件和跨平台桌面端应用 - Browser extension and cross-platform desktop application for translation based on ChatGPT API.

alphafold

Open source code for AlphaFold.

RWKV-LM

RWKV is an RNN with transformer-level LLM performance. It can be directly trained like a GPT (parallelizable). So it's combining the best of RNN and transformer - great performance, fast inference, saves VRAM, fast training, "infinite" ctx_len, and free sentence embedding.

openfold

Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2

RoseTTAFold

This package contains deep learning models and related scripts for RoseTTAFold

ColabFold

Making Protein folding accessible to all!

convmixer

Implementation of ConvMixer for "Patches Are All You Need? 🤷"

keops

KErnel OPerationS, on CPUs and GPUs, with autodiff and without memory overflows

AutoDock-Vina

AutoDock Vina

EquiBind

EquiBind: geometric deep learning for fast predictions of the 3D structure in which a small molecule binds to a protein

pdbfixer

PDBFixer fixes problems in PDB files

ddib

Dual Diffusion Implicit Bridges for Image-to-Image Translation. ICLR 2023.

pytorch-checkpoint

SMURF

ProteinLM

Protein Language Model

Steerable-E3-GNN

E(3) Steerable Graph Neural Network

atomium

Python macromolecular parsing (with .pdb/.cif/.mmtf parsing and production)

USalign

Universal Structure Alignment of Monomeric and Complex Structure of Nucleic Acids and Proteins

GWG_release

Official release of code for "Oops I Took A Gradient: Scalable Sampling for Discrete Distributions"

UniDesign

a universal framework for computational protein design

DRfold

rMSA

RNA Multiple Sequence Alignment

mmCIF2BioLiP

BioLiP2 database curation and web interface

WuLiXueBao

WuLiXueBao magazine article - automatic differentiation.

BeEM

Conversion of PDBx/mmCIF files to best effort/minimal PDB files

pLMs-interpretability

pdc

Protein data compressor

structure-vs-folding

Code for article "Current structure predictors are not learning the physics of protein folding" by Outeiral et al. (Bioinformatics, 2022)

Arena

dssp-wsl

allow windows programs to call dssp/mkdssp command from wsl; rework biopython on windows (PDB -> dssp -> fasta)