Potts model-based protein sequence design
☆83Mar 13, 2026Updated last week
Alternatives and similar repositories for caliby
Users that are interested in caliby are comparing it to the libraries listed below
Sorting:
- ☆114Feb 1, 2026Updated last month
- Deploying synthetic coevolution and machine learning to engineer protein-protein interactions☆16Jul 30, 2023Updated 2 years ago
- This repository contains a set of scripts for performing singular value decomposition on protein multiple sequence alignments, and analyz…☆11Aug 12, 2024Updated last year
- Code for "Calibrating Generative Models" by Henry Smith, Nathaniel Diamant, and Brian Trippe☆38Jan 13, 2026Updated 2 months ago
- ESMDynamic repo☆22Feb 25, 2026Updated 3 weeks ago
- ☆20Dec 4, 2025Updated 3 months ago
- ☆61Apr 9, 2024Updated last year
- Model for predicting micro-millisecond motions from protein sequence and/or structure☆76Feb 2, 2026Updated last month
- ☆26Mar 13, 2026Updated last week
- ☆19Nov 28, 2025Updated 3 months ago
- A simplified implementation of DSSP algorithm for PyTorch and NumPy☆97Jun 9, 2025Updated 9 months ago
- Finding patch of conserved amino acid sites in 3D structure☆13Apr 13, 2025Updated 11 months ago
- Some scripts that I keep using over and over.☆21Jul 5, 2025Updated 8 months ago
- Aligning protein generative models with experimental fitness☆120Mar 12, 2026Updated last week
- ☆242Feb 12, 2026Updated last month
- Structure-conditioned masked language modeling for protein sequence design☆72Jan 31, 2024Updated 2 years ago
- Application to assign secondary structure to proteins☆250Mar 4, 2026Updated 2 weeks ago
- LatentDE: Latent-based Directed Evolution for Protein Sequence Design☆38Apr 2, 2025Updated 11 months ago
- Neural Iterative Selection-Expansion using LigandMPNN/LASErMPNN and Boltz-2x☆32Feb 12, 2026Updated last month
- GNN trained to predict changes in thermodynamic stability for protein point mutants☆229Aug 7, 2025Updated 7 months ago
- Updated Protpardelle models with more robust motif scaffolding and multichain support☆72Mar 7, 2026Updated last week
- Generative Language Modeling for Antibody Design☆183Oct 5, 2024Updated last year
- Official code release for paper "Temporal Score Rescaling for Temperature Sampling in Diffusion and Flow Models"☆44Oct 2, 2025Updated 5 months ago
- Diffusion-based all-atom protein generative model.☆233Aug 27, 2025Updated 6 months ago
- Codebase of the paper "Str2Str: A Score-based Framework for Zero-shot Protein Conformation Sampling" (ICLR 2024)☆81Mar 7, 2024Updated 2 years ago
- Enables using Boltz-1/1x to predict the structure of arbitrary covalent modifications / Non-Canonical Amino Acids. Covalent bonds are enf…☆20May 21, 2025Updated 9 months ago
- ☆17Dec 23, 2024Updated last year
- Gibbs sampling for generating protein sequences☆58Jan 17, 2025Updated last year
- Flexibility-conditioned protein structure design☆32Mar 10, 2026Updated last week
- A drop-in replacement for Rosetta Relax☆27Jan 30, 2026Updated last month
- HyperMPNN ‒ A general strategy to design thermostable proteins learned from hyperthermophiles☆73Jul 2, 2025Updated 8 months ago
- ☆47Sep 16, 2024Updated last year
- ☆14Oct 5, 2024Updated last year
- A series of scripts that facilitate the prediction of protein structures in multiple conformations using AlphaFold2☆98Aug 29, 2023Updated 2 years ago
- Code release for "Improving diffusion-based protein backbone generation with global-geometry-aware latent encoding"☆47Aug 5, 2025Updated 7 months ago
- Sidechain conditioning and modeling for full-atom protein sequence design☆137Nov 11, 2025Updated 4 months ago
- a pytorch version for GREMLIN, used to predict the protein contacts by coevolution method.☆17May 30, 2021Updated 4 years ago
- PLM-interact: extending protein language models to predict protein-protein interactions.☆62Aug 29, 2025Updated 6 months ago
- This is the official code repository for the paper NeurIPS 2024 spotlight paper "Kermut: Composite kernel regression for protein variant …☆44Aug 5, 2025Updated 7 months ago