xinformatics / alphafold
Open source code for AlphaFold to extract protein embeddings
☆26Updated 3 years ago
Alternatives and similar repositories for alphafold:
Users that are interested in alphafold are comparing it to the libraries listed below
- Preforms De novo protein design using machine learning and PyRosetta to generate a novel protein structure☆50Updated 3 years ago
- The Enhanced Database of Interacting Protein Structures for Interface Prediction☆48Updated last year
- Joint Sequence-Structure Generation of Nucleic Acid and Protein Complexes with SE(3)-Discrete Diffusion☆56Updated 9 months ago
- Learning to design protein-protein interactions with enhanced generalization (ICLR 2024)☆47Updated last month
- ☆44Updated 4 months ago
- Code for Fold2Seq paper from ICML 2021☆50Updated 2 years ago
- Generating and scoring novel enzyme sequences with a variety of models and metrics☆69Updated last month
- RXN for biochemical reactions☆66Updated 2 years ago
- Structure-conditioned masked language modeling for protein sequence design☆61Updated last year
- A collection of tasks to probe the effectiveness of protein sequence representations in modeling aspects of protein design☆96Updated 5 months ago
- Inference code for PoET: A generative model of protein families as sequences-of-sequences☆65Updated 10 months ago
- NodeCoder is a general framework based on graph convolutional neural network for protein function prediction.☆32Updated 10 months ago
- Implementation of the Confidence Bootstrapping procedure for protein-ligand docking.☆27Updated last year
- The official implementation of DiffAbXL benchmarked in the paper "Exploring Log-Likelihood Scores for Ranking Antibody Sequence Designs",…☆66Updated 4 months ago
- A geometric deep learning pipeline for predicting protein interface contacts. (ICLR 2022)☆63Updated 2 years ago
- A 3D-equivariant neural network for protein structure accuracy estimation☆18Updated 2 years ago
- A comprehensive benchmark on the performances of multiple protein backbone generative models.☆50Updated 2 weeks ago
- An unofficial re-implementation of AntiBERTy, an antibody-specific protein language model, in PyTorch.☆24Updated 11 months ago
- FrameDiPT: an SE(3) diffusion model for protein structure inpainting☆51Updated last year
- LM-GVP: A Generalizable Deep Learning Framework for Protein Property Prediction from Sequence and Structure☆55Updated 11 months ago
- Embedding-based annotation transfer (EAT) uses Euclidean distance between vector representations (embeddings) of proteins to transfer ann…☆31Updated last month
- ☆57Updated 11 months ago
- PDBench is a dataset and software package for evaluating fixed-backbone sequence design algorithms.☆27Updated 2 years ago
- The software system of improving AlphaFold2- and AlphaFold-Multimer-based protein tertiary & quaternary structure prediction. It was deve…☆28Updated last year
- Tool for modelling the CDRs of antibodies☆32Updated 2 years ago
- ☆61Updated 2 months ago
- DistilProtBert implementation, a distilled version of ProtBert model.☆15Updated 2 years ago
- Code for our paper "Protein sequence design with a learned potential"☆80Updated last year
- Fork of matteofigliuzzi/bmDCA repository for Boltzmann-machine Direct Coupling Analysis (bmDCA).☆34Updated 4 years ago
- This repository implements Gibbs sampling with Graph-based Smoothing☆37Updated 9 months ago