lucidrains / equiformer-diffusionLinks
Implementation of Denoising Diffusion for protein design, but using the new Equiformer (successor to SE3 Transformers) with some additional improvements
☆57Updated 2 years ago
Alternatives and similar repositories for equiformer-diffusion
Users that are interested in equiformer-diffusion are comparing it to the libraries listed below
Sorting:
- Implementation of Nvidia's NeuralPlexer, for end-to-end differentiable design of functional small-molecules and ligand-binding proteins, …☆52Updated last year
- Replication attempt for the Protein Folding Model described in https://www.biorxiv.org/content/10.1101/2021.08.02.454840v1☆37Updated 3 years ago
- Pytorch reimplementation of Molecule Attention Transformer, which uses a transformer to tackle the graph-like structure of molecules☆59Updated 4 years ago
- Implementation of Geometric Vector Perceptron, a simple circuit for 3d rotation equivariance for learning over large biomolecules, in Pyt…☆74Updated 4 years ago
- ☆118Updated last year
- Implementation of the DDPM + IPA (invariant point attention) for protein generation, as outlined in the paper "Protein Structure and Sequ…☆89Updated 3 years ago
- Implementation of Tranception, an attention network, paired with retrieval, that is SOTA for protein fitness prediction☆32Updated 3 years ago
- Implementation and replication of ProGen, Language Modeling for Protein Generation, in Jax☆113Updated 3 years ago
- Implementation of Invariant Point Attention, used for coordinate refinement in the structure module of Alphafold2, as a standalone Pytorc…☆162Updated 2 years ago
- In-silico design pipeline for evaluating protein structure diffusion models.☆27Updated last year
- RITA is a family of autoregressive protein models, developed by LightOn in collaboration with the OATML group at Oxford and the Debora Ma…☆98Updated 2 years ago
- ☆35Updated 3 months ago
- A Modular Architecture for Deep Learning Systems☆43Updated 2 months ago
- pytorch implementation of trDesign☆45Updated 4 years ago
- A new retrieval-based framework for controllable molecule generation.☆49Updated 2 years ago
- Implementation of E(n)-Transformer, which incorporates attention mechanisms into Welling's E(n)-Equivariant Graph Neural Network☆225Updated last year
- ☆12Updated 8 months ago
- Implementation of trRosetta and trDesign for Pytorch, made into a convenient package, for protein structure prediction and design☆82Updated 3 years ago
- Official implementation of "Generating 3D Molecules for Target Protein Binding" [ICML2022 Long Presentation]☆108Updated 2 years ago
- Python package for P2 (Path Planning), a masked diffusion model sampling method for sequence generation (protein, text, etc.).☆15Updated last month
- Implementation of the Triangle Multiplicative module, used in Alphafold2 as an efficient way to mix rows or columns of a 2d feature map, …☆35Updated 4 years ago
- Exploring Evolution-aware & free protein language models as protein function predictors☆63Updated 10 months ago
- A tool for predicting the effects of missense mutations on protein stability changes upon missense mutation using protein sequence only. …☆22Updated 2 years ago
- A denoising diffusion probabilistic model (DDPM) tailored for conditional generation of protein distograms☆141Updated 3 years ago
- Code for 'On Pre-trained Language Models For Antibody'☆33Updated 2 years ago
- A Fast, Simplified Model for Molecular Generation with Improved Physical Quality☆14Updated 3 weeks ago
- Code for "Molecular Hypergraph Grammar with Its Application to Molecular Optimization"☆39Updated 7 months ago
- [ACL 2024] ProtLLM: An Interleaved Protein-Language LLM with Protein-as-Word Pre-Training☆49Updated last year
- Implementation of Chroma, generative models of protein using DDPM and GNNs, in Pytorch☆159Updated 2 years ago
- Code for the paper https://arxiv.org/abs/2402.04997☆88Updated last year