Alternatives and similar repositories for ppde:

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

• HeliXonProtein / proximal-exploration
  PyTorch implementation for our paper "Proximal Exploration for Model-guided Protein Sequence Design"
  ☆35Updated last year
• petergroth / FLOP
  This is the official code repository for the paper FLOP: Tasks for Fitness Landscapes Of Protein wildtypes by Groth et al.
  ☆22Updated last year
• kirjner / GGS
  This repository implements Gibbs sampling with Graph-based Smoothing
  ☆37Updated 10 months ago
• shichence / ProtSeed
  Source code of the paper "Protein Sequence and Structure Co-Design with Equivariant Translation"
  ☆23Updated last year
• anton-bushuiev / PPIformer
  Learning to design protein-protein interactions with enhanced generalization (ICLR 2024)
  ☆46Updated 2 months ago
• blt2114 / MotifBench
  A standardized protein design benchmark for motif-scaffolding problems
  ☆43Updated 2 weeks ago
• alexechu / protpardelle
  ☆66Updated last year
• dqwang122 / EATLM
  Code for 'On Pre-trained Language Models For Antibody'
  ☆33Updated 2 years ago
• Immortals-33 / Scaffold-Lab
  A comprehensive benchmark on the performances of multiple protein backbone generative models.
  ☆53Updated last week
• Profluent-Internships / MMDiff
  Joint Sequence-Structure Generation of Nucleic Acid and Protein Complexes with SE(3)-Discrete Diffusion
  ☆56Updated 10 months ago
• pengzhangzhi / ab_opt
  Official implementation of Generative Diffusion Models for Antibody Design, Docking, and Optimization.
  ☆57Updated last year
• Croydon-Brixton / proteinmpnn_wrapper
  A thin wrapper around ProteinMPNN for convenient sampling without having to write out or consume files
  ☆11Updated 11 months ago
• Minys233 / Dynaformer
  ☆31Updated 9 months ago
• prescient-design / walk-jump
  Official repository for discrete Walk-Jump Sampling (dWJS)
  ☆50Updated 9 months ago
• LDeng0205 / confidence-bootstrapping
  Implementation of the Confidence Bootstrapping procedure for protein-ligand docking.
  ☆27Updated last year
• Kuhlman-Lab / PIPPack
  Implementation of Protein Invariant Point Packer (PIPPack)
  ☆33Updated 10 months ago
• petergroth / kermut
  This is the official code repository for the paper NeurIPS 2024 spotlight paper "Kermut: Composite kernel regression for protein variant …
  ☆18Updated 3 months ago
• TencentAI4S / IgGM
  [ICLR2025] Official Implementation of IgGM: A Generative Model for Functional Antibody and Nanobody Design
  ☆59Updated 2 weeks ago
• KULL-Centre / _2023_Blaabjerg_SSEmb
  ☆33Updated 6 months ago
• evo-design / protein-dpo
  Aligning protein generative models with experimental fitness
  ☆88Updated 5 months ago
• johnyang101 / pmpnndiff
  Repository for Fast Non-autoregressive Inverse Folding with Discrete Diffusion
  ☆17Updated last year
• luost26 / RDE-PPI
  Rotamer Density Estimator is an Unsupervised Learner of the Effect of Mutations on Protein-Protein Interaction (ICLR 2023)
  ☆57Updated 9 months ago
• zzhangzzhang / pLMs-interpretability
  ☆26Updated 5 months ago
• Wangchentong / Proteus
  Pytorch implementation for ICML 2024 paper Proteus: Exploring Protein Structure Generation for Enhanced Designability and Efficiency.
  ☆73Updated 9 months ago
• instadeepai / protein-structure-tokenizer
  Official implementation of "Learning the language of protein structures"
  ☆23Updated 3 months ago
• AI4PDLab / ProtRL
  ☆55Updated this week
• compsciencelab / mdCATH
  This repository houses all the scripts and notebooks utilized for generating, analyzing, and validating the mdCATH dataset. Some user ex…
  ☆40Updated 4 months ago
• CarbonMatrixLab / AbX
  Official open-source of Antibody Design Using a Score-based Diffusion Model Guided by Evolutionary, Physical, and Geometric Constraints
  ☆28Updated 2 months ago
• DeepGraphLearning / S3F
  Sequence-Structure-Surface Model for Protein Fitness Prediction (S3F)
  ☆30Updated 3 months ago
• aqlaboratory / insilico_design_pipeline
  In-silico design pipeline for evaluating protein structure diffusion models.
  ☆22Updated 9 months ago