pemami4911 / ppdeLinks
Official repository for "Plug & Play Directed Evolution for Proteins with Gradient-Based Discrete MCMC"
☆12Updated 2 years ago
Alternatives and similar repositories for ppde
Users that are interested in ppde are comparing it to the libraries listed below
Sorting:
- PyTorch implementation for our paper "Proximal Exploration for Model-guided Protein Sequence Design"☆37Updated 2 years ago
- [NeurIPS 2025 spotlight] Efficient factorized variant of the IPA module.☆41Updated last month
- This is the official code repository for the paper FLOP: Tasks for Fitness Landscapes Of Protein wildtypes by Groth et al.☆22Updated 2 years ago
- This repository implements Gibbs sampling with Graph-based Smoothing☆41Updated last year
- Official implementation of "Learning the language of protein structures"☆41Updated 6 months ago
- Official repository for discrete Walk-Jump Sampling (dWJS)☆59Updated last year
- Source code of the paper "Protein Sequence and Structure Co-Design with Equivariant Translation"☆24Updated 2 years ago
- ☆64Updated 2 years ago
- This repository houses all the scripts and notebooks utilized for generating, analyzing, and validating the mdCATH dataset. Some user ex…☆53Updated 3 weeks ago
- A benchmark for comprehensive evaluation on protein structure tokenization methods☆38Updated 5 months ago
- NeurIPS 2023 Spotlight paper: Full atom protein pocket design via iterative refinement☆47Updated 2 years ago
- Joint Sequence-Structure Generation of Nucleic Acid and Protein Complexes with SE(3)-Discrete Diffusion☆58Updated last year
- A comprehensive benchmark on the performances of multiple protein backbone generative models.☆64Updated 7 months ago
- Aligning protein generative models with experimental fitness☆115Updated 2 months ago
- Contrastive fitness learning: Reprogramming protein language models for low-N learning of protein fitness landscape☆35Updated last month
- Deploying synthetic coevolution and machine learning to engineer protein-protein interactions☆16Updated 2 years ago
- Codebase of the paper "Str2Str: A Score-based Framework for Zero-shot Protein Conformation Sampling" (ICLR 2024)☆80Updated last year
- Structure-conditioned masked language modeling for protein sequence design☆70Updated last year
- dMaSIF implementation for google colab☆36Updated 2 years ago
- Rotamer Density Estimator is an Unsupervised Learner of the Effect of Mutations on Protein-Protein Interaction (ICLR 2023)☆61Updated last year
- RNAFlow: RNA Structure & Sequence Design via Inverse Folding-Based Flow Matching☆79Updated last year
- diffusion model for protein sequence generation☆50Updated 2 years ago
- Learning to design protein-protein interactions with enhanced generalization (ICLR 2024)☆50Updated last month
- Code for ICML 2023 paper "Reprogramming Pretrained Language Models for Antibody Sequence Infilling"☆24Updated 3 months ago
- Code for 'On Pre-trained Language Models For Antibody'☆32Updated 2 years ago
- Official repository for discrete Walk-Jump Sampling (dWJS)☆55Updated 2 years ago
- ☆34Updated last year
- ☆15Updated 5 months ago
- Meta learning addresses noisy and under-labeled data in machine learning-guided antibody engineering (https://doi.org/10.1016/j.cels.2023…☆20Updated last year
- Pytorch implementation for ICML 2024 paper Proteus: Exploring Protein Structure Generation for Enhanced Designability and Efficiency.☆83Updated last year