JackYang825

JackYang825's Stars

• zhanghaicang/carbonmatrix_public

  Language:Python11112

• xxiexuezhi/ABSGM

  Language:Jupyter Notebook6

• TencentAI4S/IgGM

  [ICLR2025] Official Implementation of IgGM: A Generative Model for Functional Antibody and Nanobody Design

  Language:Python6113

• ikalvet/invrotzyme

  Utility for building inverse rotamer assemblies out of a Rosetta matcher/enzdes constraint file.

  Language:Python162

• GLAD-RUC/GGNN4Science

  11511

• zhengkangjie/ESM-AA

  Language:Python677

• Unakar/Logic-RL

  Reproduce R1 Zero on Logic Puzzle

  Language:Python2.3k147

• THUNLP-MT/PepGLAD

  Codes for our paper "Full-Atom Peptide Design with Geometric Latent Diffusion" (NeurIPS 2024)

  Language:Python562

• THUNLP-MT/GET

  This repo contains the codes for our paper "Generalist Equivariant Transformer Towards 3D Molecular Interaction Learning" (ICML 2024).

  Language:Python303

• jsunn-y/ALDE

  Active Learning-Assisted Directed Evolution for Protein Engineering

  Language:Jupyter Notebook458

• deepseek-ai/DeepSeek-R1

  88k11.4k

• bjing2016/alphaflow

  AlphaFold Meets Flow Matching for Generating Protein Ensembles

  Language:Python42957

• oxpig/kasearch

  KA-Search: Rapid and exhaustive sequence identity search of known antibodies

  Language:Jupyter Notebook225

• meilerlab/PLM_restraint

  Language:Shell9

• MichaelGajhede/Pyrosetta_protein_mutations_ddG

  Language:Jupyter Notebook31

• Kortemme-Lab/flex_ddG_tutorial

  Language:Python10530

• microsoft/AI2BMD

  AI-powered ab initio biomolecular dynamics simulation

  Language:Python48462

• epi2me-labs/wf-clone-validation

  Language:Python3021

• arantir123/MCGLPPI

  MCGLPPI and MCGLPPI++: Integration of molecular coarse-grained model into geometric representation learning framework for protein-protein complex property prediction

  Language:Python17

• DeepGraphLearning/SiamDiff

  Code for Pre-training Protein Encoder via Siamese Sequence-Structure Diffusion Trajectory Prediction (https://arxiv.org/abs/2301.12068)

  Language:Python395

• Tessier-Lab-UMich/CST_Prop_Opt_ML

  Language:Python72

• dptech-corp/Uni-Core

  an efficient distributed PyTorch framework

  Language:Python13235

• iambic-therapeutics/np-bench

  A benchmark for 3D biomolecular structure prediction models

  Language:Python564

• GENTEL-lab/EnzymeCAGE

  Language:Python346

• DeepGraphLearning/torchdrug

  A powerful and flexible machine learning platform for drug discovery

  Language:Python1.5k204

• drorlab/DIPS

  Database of Interacting Protein Structures (DIPS)

  Language:Python9813

• ChenPy00/PPB-Affinity

  Baseline model for PPB-Affinity benchmark data

  Language:Jupyter Notebook221

• shenwei356/seqkit

  A cross-platform and ultrafast toolkit for FASTA/Q file manipulation

  Language:Go1.4k162

• DeepGraphLearning/GearBind

  Pretrainable geometric graph neural network for antibody affinity maturation

  Language:Python516

• MutonAI/Mu-Protein

  Language:Jupyter Notebook203