SPYfighting

SPYfighting's Stars

• meilerlab/HyperMPNN

  HyperMPNN ‒ A general strategy to design thermostable proteins learned from hyperthermophiles

  Language:Jupyter Notebook134

• Kortemme-Lab/flex_ddG_tutorial

  Language:Python8629

• bytedance/Protenix

  A trainable PyTorch reproduction of AlphaFold 3.

  Language:Python69755

• martinpacesa/BindCraft

  User friendly and accurate binder design pipeline

  Language:Python31965

• huggingface/transformers

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

  Language:Python136k27.2k

• HICAI-ZJU/KnowRLM

  Language:Python61

• fhalab/MLDE

  A machine-learning package for navigating combinatorial protein fitness landscapes.

  Language:Python12226

• baal-org/baal

  Bayesian active learning library for research and industrial usecases.

  Language:Python87386

• alibaba/LucaProt

  LucaProt: A novel deep learning framework that incorporates protein amino acid sequence and structural information to predict protein function.

  Language:Python14623

• hwanz/SSR-V2ray-Trojan-vpn

  免费机场公益机场收集/免费vpn-定时更新

  3.8k191

• rsennrich/subword-nmt

  Unsupervised Word Segmentation for Neural Machine Translation and Text Generation

  Language:Python2.2k464

• chandar-lab/AMPLIFY

  Language:Python7910

• maovshao/PLMSearch

  PLMSearch enables accurate and fast homologous protein search with only sequences as input

  Language:Jupyter Notebook628

• maovshao/PLMAlign

  PLMAlign utilizes per-residue embeddings as input to obtain specific alignments and more refined similarity

  Language:Jupyter Notebook183

• bzho3923/CPDiffusion

  Language:Python171

• westlake-repl/ProTrek

  ProTrek: Navigating the Protein Universe through Tri-Modal Contrastive Learning

  Language:Python618

• Ligo-Biosciences/AlphaFold3

  Open source implementation of AlphaFold3

  Language:Python93282

• ml4bio/Dense-Homolog-Retrieval

  Nature Biotechnology: Ultra-fast, sensitive detection of protein remote homologs using deep dense retrieval

  Language:Python932

• idmjky/EvolvePro

  PLM based active learning model for protein engineering

  Language:Python609

• mat10d/EvolvePro

  This is the offical codebase to reproduce and use EVOLVEpro, a model for in silico directed evolution of protein activities using few-shot active learning.

  Language:Python10025

• ai4protein/Pro-FSFP

  Pro-FSFP: Few-Shot Protein Fitness Prediction

  Language:Python623

• ShiArthur03/ShiArthur03

  Language:MATLAB10.4k1.9k

• OATML-Markslab/ProteinNPT

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

  Language:Python878

• ml4bio/USPNet

  Nature Computational Science: Unbiased organism-agnostic and highly sensitive signal peptide predictor with deep protein language model

  Language:Python272

• westlake-repl/ProteinLM-TDG2-Mutation

  Protein language models-assisted optimization of a uracil-N-glycosylase variant enables programmable T-to-G and T-to-C base editing

  Language:Jupyter Notebook131

• Eikor/InstructPLM

  The first large protein language model trained follows structure instructions.

  Language:Python725

• microsoft/protein-transfer

  Language:Python265

• microsoft/evodiff

  Generation of protein sequences and evolutionary alignments via discrete diffusion models

  Language:Python52974

• Peldom/papers_for_protein_design_using_DL

  List of papers about Proteins Design using Deep Learning

  1.5k175

• luo-group/ConFit

  Contrastive fitness learning: Reprogramming protein language models for low-N learning of protein fitness landscape

  Language:Python268