sokrypton / ColabBio
random colab notebooks for biology
☆16Updated 2 weeks ago
Related projects: ⓘ
- Target Sequence-Conditioned Generation of Peptide Binders via Masked Language Modeling☆35Updated last month
- Joint embedding of protein sequence and structure with discrete and continuous compressions of protein folding model latent spaces. https…☆60Updated this week
- Aligning protein generative models with experimental fitness☆63Updated 2 months ago
- Generating and scoring novel enzyme sequences with a variety of models and metrics☆58Updated 2 months ago
- dMaSIF implementation for google colab☆29Updated last year
- Implementation of Protein Invariant Point Packer (PIPPack)☆30Updated 3 months ago
- Inference code for PoET: A generative model of protein families as sequences-of-sequences☆47Updated 4 months ago
- Novel estimator for the change in stability upon point mutation in monomeric and multimeric proteins.☆27Updated 2 weeks ago
- This is the official code repository for the paper FLOP: Tasks for Fitness Landscapes Of Protein wildtypes by Groth et al.☆20Updated last year
- This repository implements Gibbs sampling with Graph-based Smoothing☆30Updated 3 months ago
- Mutational Effect Transfer Learning (METL) framework for pretraining and finetuning biophysics-informed protein language models☆22Updated 2 weeks ago
- Local Interaction Score (LIS) Calculation from AlphaFold-Multimer (Enhanced Protein-Protein Interaction Discovery via AlphaFold-Multimer)☆39Updated 3 weeks ago
- Directed evolution of proteins in sequence space with gradients☆59Updated last month
- ☆9Updated this week
- Fork of matteofigliuzzi/bmDCA repository for Boltzmann-machine Direct Coupling Analysis (bmDCA).☆33Updated 4 years ago
- Structure-conditioned masked language modeling for protein sequence design☆56Updated 7 months ago
- PDBench is a dataset and software package for evaluating fixed-backbone sequence design algorithms.☆27Updated last year
- The software system of improving AlphaFold2- and AlphaFold-Multimer-based protein tertiary & quaternary structure prediction. It was deve…☆23Updated 9 months ago
- ☆35Updated 8 months ago
- ☆23Updated last month
- An antibody-specific language model focusing on NGL prediction☆17Updated 3 weeks ago
- Adapting protein language models for structure-conditioned design☆28Updated last month
- ☆12Updated 2 months ago
- Improved antibody structure-based design using inverse folding☆66Updated this week
- ☆17Updated this week
- FrameDiPT: an SE(3) diffusion model for protein structure inpainting☆49Updated 7 months ago
- Structure prediction of alternative protein conformations☆66Updated 3 weeks ago
- Codebase of the paper "Str2Str: A Score-based Framework for Zero-shot Protein Conformation Sampling" (ICLR 2024)☆65Updated 6 months ago
- Tool for modelling the CDRs of antibodies☆32Updated last year
- Implementation of AlphaFold 3 in PyTorch Lightning + Hydra☆21Updated this week