MJ10 / BioSeq-GFN-ALLinks
Code for "Biological Sequence Design with GFlowNets", 2022
☆73Updated 2 years ago
Alternatives and similar repositories for BioSeq-GFN-AL
Users that are interested in BioSeq-GFN-AL are comparing it to the libraries listed below
Sorting:
- Code to reproduce experiments in "Accelerating Bayesian Optimization for Protein Design with Denoising Autoencoders" (Stanton et al 2022)☆71Updated last year
- Benchmark for Biophysical Sequence Optimization Algorithms☆18Updated 2 weeks ago
- Official repository for discrete Walk-Jump Sampling (dWJS)☆53Updated last year
- Implementation of the DDPM + IPA (invariant point attention) for protein generation, as outlined in the paper "Protein Structure and Sequ…☆90Updated 2 years ago
- Official repository for discrete Walk-Jump Sampling (dWJS)☆53Updated last year
- Protein Design with Guided Discrete Diffusion☆131Updated last year
- ☆24Updated last month
- Code for the paper Context-Guided Diffusion for Out-of-Distribution Molecular and Protein Design☆38Updated 10 months ago
- Code for the paper https://arxiv.org/abs/2402.04997☆78Updated last year
- PyTorch implementation for our paper "Proximal Exploration for Model-guided Protein Sequence Design"☆36Updated last year
- A list of manuscripts/tools using diffusion on biological enttieis☆96Updated last year
- ☆29Updated 2 years ago
- Official implementation of "Generating 3D Molecules for Target Protein Binding" [ICML2022 Long Presentation]☆108Updated last year
- Mixed continous/categorical flow-matching model for de novo molecule generation.☆107Updated this week
- A Modular Architecture for Deep Learning Systems☆41Updated last week
- Massively-Parallel Natural Extension of Reference Frame☆31Updated 2 years ago
- Database of Interacting Protein Structures (DIPS)☆100Updated last year
- Code for the paper Iterated Denoising Energy Matching for Sampling from Boltzmann Densities.☆55Updated last month
- This repository implements Gibbs sampling with Graph-based Smoothing☆38Updated last year
- Implementation of FlowSite and HarmonicFlow from the paper "Harmonic Self-Conditioned Flow Matching for Multi-Ligand Docking and Binding …☆98Updated 10 months ago
- Intrinsic-Extrinsic Convolution and Pooling for Learning on 3D Protein Structures☆47Updated 3 years ago
- A GFlowNet with a chemical synthesis action space.☆53Updated 4 months ago
- Code implementation of "Diffusion probabilistic modeling of protein backbones in 3D for the motif-scaffolding problem" https://arxiv.org/…☆74Updated last year
- RetroBridge: Markov Bridge Model for Retrosynthesis Planning☆30Updated last year
- Supporting code for our paper "Protein Sequence Modelling with Bayesian Flow Networks"☆43Updated 3 months ago
- Official repository for "Plug & Play Directed Evolution for Proteins with Gradient-Based Discrete MCMC"☆12Updated last year
- ☆164Updated last year
- The official codebase of the paper "Chemical language modeling with structured state space sequence models"☆78Updated 10 months ago
- Joint Sequence-Structure Generation of Nucleic Acid and Protein Complexes with SE(3)-Discrete Diffusion☆58Updated last year
- PEER Benchmark, appear at NeurIPS 2022 Dataset and Benchmark Track (https://arxiv.org/abs/2206.02096)☆89Updated 2 years ago