Alternatives and similar repositories for Protein_Pretrain:

Users that are interested in Protein_Pretrain are comparing it to the libraries listed below

• THUNLP-MT / GET
  This repo contains the codes for our paper "Generalist Equivariant Transformer Towards 3D Molecular Interaction Learning" (ICML 2024).
  ☆30Updated 7 months ago
• anton-bushuiev / PPIformer
  Learning to design protein-protein interactions with enhanced generalization (ICLR 2024)
  ☆44Updated 3 months ago
• zaixizhang / FLAG
  Implementation of ICLR23 paper "Molecule Generation for Target Protein Binding with Structural Motifs"
  ☆66Updated last year
• Bhattacharya-Lab / EquiPNAS
  pLM-informed E(3) equivariant deep graph neural networks for protein-nucleic acid binding site prediction
  ☆21Updated last year
• LDeng0205 / confidence-bootstrapping
  Implementation of the Confidence Bootstrapping procedure for protein-ligand docking.
  ☆27Updated last year
• smiles724 / GNN-Bottleneck
  ☆39Updated 2 years ago
• THUNLP-MT / PepGLAD
  Codes for our paper "Full-Atom Peptide Design with Geometric Latent Diffusion" (NeurIPS 2024)
  ☆61Updated last week
• Profluent-Internships / MMDiff
  Joint Sequence-Structure Generation of Nucleic Acid and Protein Complexes with SE(3)-Discrete Diffusion
  ☆57Updated 11 months ago
• CMACH508 / KGDiff
  Towards Explainable Target-Aware Molecule Generation with Knowledge Guidance
  ☆31Updated last year
• XieResearchGroup / Physics-aware-Multiplex-GNN
  Code for our Nature Scientific Reports paper "A universal framework for accurate and efficient geometric deep learning of molecular syste…
  ☆68Updated 5 months ago
• BioinfoMachineLearning / GCPNet
  A geometry-complete SE(3)-equivariant perceptron network (GCPNet) for 3D graphs. (Bioinformatics)
  ☆45Updated this week
• juexinwang / NRI-MD
  Neural relational inference for molecular dynamics simulations
  ☆56Updated last year
• DeepGraphLearning / SiamDiff
  Code for Pre-training Protein Encoder via Siamese Sequence-Structure Diffusion Trajectory Prediction (https://arxiv.org/abs/2301.12068)
  ☆39Updated last year
• EureKaZhu / DiffAffinity
  Predicting mutational effects on protein-protein binding via a side-chain diffusion probabilistic model (NeurIPS 2023 Poster)
  ☆35Updated last year
• BioinfoMachineLearning / ATOMRefine
  3D equivariant graph transformer for all-atom refinement of protein tertiary structures
  ☆26Updated last year
• biomed-AI / GraphPPIS
  ☆52Updated 8 months ago
• DirectMolecularConfGen / DMCG
  ☆53Updated 2 years ago
• zaixizhang / FAIR
  NeurIPS 2023 Spotlight paper: Full atom protein pocket design via iterative refinement
  ☆46Updated last year
• chao1224 / GeoSSL
  GeoSSL: Molecular Geometry Pretraining with SE(3)-Invariant Denoising Distance Matching, ICLR'23 (https://openreview.net/forum?id=CjTHVo1…
  ☆46Updated last year
• chao1224 / ProteinDT
  A Text-guided Protein Design Framework, Nat Mach Intell 2025 (https://www.nature.com/articles/s42256-025-01011-z)
  ☆75Updated 3 months ago
• vsomnath / holoprot
  Multi-Scale Representation Learning on Proteins (NeurIPS 2021)
  ☆47Updated last year
• TencentAI4S / IgGM
  [ICLR2025] Official Implementation of IgGM: A Generative Model for Functional Antibody and Nanobody Design
  ☆64Updated this week
• leeyang / DRfold
  ☆39Updated last year
• Minys233 / Dynaformer
  ☆31Updated 9 months ago
• WillHua127 / ReactZyme
  Official repository of ReactZyme
  ☆30Updated 6 months ago
• sarpaykent / GBPNet
  ☆20Updated 2 years ago
• OdinZhang / SurfGen
  SurfGen: Learning on Topological Surface and Geometric Structure for 3D Molecular Generation
  ☆63Updated 5 months ago
• phermosilla / IEConv_proteins
  Intrinsic-Extrinsic Convolution and Pooling for Learning on 3D Protein Structures
  ☆48Updated 3 years ago
• THGLab / LP-PDBBind
  ☆38Updated last year
• lmqfly / Geometry-Deep-Learning-for-Drug-Discovery
  Geometry Deep Learning for Drug Discovery and Life Science
  ☆67Updated last year