Latex code for making neural networks diagrams

RWKV (pronounced RwaKuv) is an RNN with great LLM performance, which can also be directly trained like a GPT transformer (parallelizable). We are at RWKV-7 "Goose". So it's combining the best of RN…

A collection of LLM papers, blogs, and projects, with a focus on OpenAI o1 🍓 and reasoning techniques.

GNN trained to predict changes in thermodynamic stability for protein point mutants

Code of GAMLP for Open Graph Benchmark. KDD‘22

🧬 Fusion of protein sequence and structural information, using denoising pre-training network for zero-shot protein engineering (eLife 2025).

Protein structure datasets for machine learning.

🧬 Augmenting zero-shot mutant prediction by retrieval-based logits fusion. (ISMB/ECCB 2025)

Code and implementations for the ACL 2025 paper "AgentGym: Evolving Large Language Model-based Agents across Diverse Environments" by Zhiheng Xi et al.

Transformer for protein function prediction

LM-GVP: A Generalizable Deep Learning Framework for Protein Property Prediction from Sequence and Structure

Papers about graph transformers.

Official Pytorch code for Structure-Aware Transformer.

Official repository for the ProteinGym benchmarks

From Chain-of-Thought prompting to OpenAI o1 and DeepSeek-R1 🍓

Making Protein Design accessible to all via Google Colab!

Protein hallucination and inpainting with RoseTTAFold

Listing of papers about machine learning for proteins.

Evolutionary Scale Modeling (esm): Pretrained language models for proteins

The official code of ARPO & AEPO

List of papers about Proteins Design using Deep Learning

Code for the ProteinMPNN paper

Nano vLLM

Optimized local inference for LLMs with HuggingFace-like APIs for quantization, vision/language models, multimodal agents, speech, vector DB, and RAG.