amsyuan

amsyuan's Stars

• jeffreyruffolo/AntiBERTy

  Antibody-specific masked language model

  Language:Python4213

• sokrypton/ColabFold

  Making Protein folding accessible to all!

  Language:Jupyter Notebook2k507

• prihoda/AbNumber

  Convenience Python APIs for antibody numbering using ANARCI

  Language:Python8812

• bjornwallner/DockQ

  DockQ is a single continuous quality measure for Protein, Nucleic Acids and Small Molecule Docking Models

  Language:Python23653

• evo-design/evo

  Biological foundation modeling from molecular to genome scale

  Language:Jupyter Notebook1.2k150

• AbSciBio/unlocking-de-novo-antibody-design

  10616

• brennanaba/ImmuneBuilder

  Predict the structure of immune receptor proteins

  Language:Jupyter Notebook4838

• zhanghaicang/carbonmatrix_public

  Language:Python10212

• FangpingWan/DeepCPI

  Language:Python148

• FunctionLab/tapioca

  a framework for predicting global protein-protein interaction networks from dynamic mass spec data

  Language:Python231

• UniBind/UniBind

  Language:Python312

• luoyunan/DTINet

  A Network Integration Approach for Drug-Target Interaction Prediction

  Language:MATLAB17661

• xxiexuezhi/ABSGM

  Language:Jupyter Notebook5

• facebookresearch/esm

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

  Language:Python3.4k659

• RosettaCommons/RoseTTAFold

  This package contains deep learning models and related scripts for RoseTTAFold

  Language:Python2.1k442

• uw-ipd/RoseTTAFold2NA

  RoseTTAFold2 protein/nucleic acid complex prediction

  Language:Python33677

• pengzhangzhi/ab_opt

  Official implementation of Generative Diffusion Models for Antibody Design, Docking, and Optimization.

  Language:Python5410

• luost26/diffab

  ✌🏻 Antigen-Specific Antibody Design and Optimization with Diffusion-Based Generative Models for Protein Structures (NeurIPS 2022)

  Language:Python28844

• uw-ipd/RoseTTAFold2

  Language:Python18038

• baker-laboratory/rf_diffusion_all_atom

  Public RFDiffusionAA repo

  Language:Python33756

• baker-laboratory/RoseTTAFold-All-Atom

  Language:Python667119

• imoneoi/openchat

  OpenChat: Advancing Open-source Language Models with Imperfect Data

  Language:Python5.3k401

• dauparas/ProteinMPNN

  Code for the ProteinMPNN paper

  Language:Jupyter Notebook1.1k317

• RosettaCommons/RFdiffusion

  Code for running RFdiffusion

  Language:Python1.9k362

• neherlab/pan-genome-analysis

  Processing pipeline for pan-genome visulization and exploration

  Language:Python13438

• rrwick/Perfect-bacterial-genome-tutorial

  Language:Python12620

• nanoporetech/dorado

  Oxford Nanopore's Basecaller

  Language:C++56068

• InternLM/xtuner

  An efficient, flexible and full-featured toolkit for fine-tuning LLM (InternLM2, Llama3, Phi3, Qwen, Mistral, ...)

  Language:Python4.1k324

• ParBLiSS/FastANI

  Fast Whole-Genome Similarity (ANI) Estimation

  Language:C++38367

• Jamalijama/Dinucleotide-Composition-Representation-DCR-

  Generally Adaptive Dinucleotide Composition Representation (DCR) Predicts SARS-CoV-2 VOCs

  Language:Python51