Alternatives and similar repositories for PPIformer

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

• LDeng0205 / confidence-bootstrapping
  Implementation of the Confidence Bootstrapping procedure for protein-ligand docking.
  ☆27Updated last year
• Wangchentong / Proteus
  Pytorch implementation for ICML 2024 paper Proteus: Exploring Protein Structure Generation for Enhanced Designability and Efficiency.
  ☆84Updated last year
• iambic-therapeutics / np-bench
  A benchmark for 3D biomolecular structure prediction models
  ☆67Updated 7 months ago
• shuyana / DiffusionProteinLigand
  ☆78Updated last year
• richardshuai / fampnn
  Sidechain conditioning and modeling for full-atom protein sequence design
  ☆127Updated last month
• wengong-jin / DSMBind
  ☆96Updated last year
• compsciencelab / mdCATH
  This repository houses all the scripts and notebooks utilized for generating, analyzing, and validating the mdCATH dataset. Some user ex…
  ☆52Updated this week
• ProteinDesignLab / IgVAE
  A variational autoencoder that directly generates the 3D coordinates of immunoglobulin protein backbones.
  ☆30Updated 3 years ago
• Graylab / GeoDock
  Flexible Protein-Protein Docking with a Multi-Track Iterative Transformer.
  ☆98Updated last year
• pengzhangzhi / ab_opt
  Official implementation of Generative Diffusion Models for Antibody Design, Docking, and Optimization.
  ☆60Updated 2 years ago
• Mingchenchen / AF3Score
  A Score-Only Adaptation of AlphaFold3 for Biomolecular Structure Evaluation
  ☆78Updated 4 months ago
• AstraZeneca / DiffAbXL
  The official implementation of DiffAbXL benchmarked in the paper "Exploring Log-Likelihood Scores for Ranking Antibody Sequence Designs",…
  ☆89Updated 6 months ago
• PeptoneLtd / proteinmpnn_ddg
  Novel estimator for the change in stability upon point mutation in monomeric and multimeric proteins.
  ☆57Updated 7 months ago
• drorlab / FRAME
  Fragment-based Molecular Expansion
  ☆25Updated last year
• vsomnath / flexdock
  Composing Unbalanced Flows for Flexible Docking and Relaxation (ICLR 2025)
  ☆54Updated 6 months ago
• huhlim / alphafold-multistate
  ☆41Updated last year
• tiejundong / FlexPose
  FlexPose, a framework for AI-based flexible modeling of protein-ligand binding pose.
  ☆54Updated last year
• instadeepai / FrameDiPT
  FrameDiPT: an SE(3) diffusion model for protein structure inpainting
  ☆58Updated last year
• microsoft / bioemu-benchmarks
  Benchmarking code accompanying the release of `bioemu`
  ☆50Updated 3 weeks ago
• DeepGraphLearning / S3F
  Sequence-Structure-Surface Model for Protein Fitness Prediction (S3F)
  ☆47Updated last year
• stebliankin / piston
  Evaluating Protein Binding Interfaces with Transformer Networks
  ☆46Updated 2 years ago
• CataAI / PoseX
  PoseX: A Molecular Docking Benchmark
  ☆60Updated 5 months ago
• ohuelab / ColabDesign-cyclic-binder
  ☆37Updated 2 years ago
• molecularmodelinglab / plantain
  Fast and accurate molecular docking with an AI pose scoring function
  ☆42Updated last year
• tiwarylab / af2rave
  Boltzmann-ranked alternative protein conformations from reduced-MSA AlphaFold2
  ☆59Updated 3 weeks ago
• TencentAI4S / HuDiff
  Code for humanization of antibody and nanobody
  ☆67Updated 3 months ago
• WillHua127 / EnzymeFlow
  Official repository of EnzymeFlow
  ☆97Updated last year
• kirjner / GGS
  This repository implements Gibbs sampling with Graph-based Smoothing
  ☆40Updated last year
• GMdSilva / gms_natcomms_1705932980_data
  Data sharing for High-throughput Prediction of Changes in Protein Conformational Distributions with Subsampled AlphaFold2
  ☆42Updated last year
• pgmikhael / clipzyme
  Reaction-Conditioned Virtual Screening of Enzymes
  ☆40Updated 6 months ago