Protein Sequence Design with Deep Learning and Tooling like Monte Carlo Sampling and Analysis
☆63Oct 28, 2025Updated 7 months ago
Alternatives and similar repositories for timed-design
Users that are interested in timed-design are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆18Mar 13, 2024Updated 2 years ago
- Structure-conditioned masked language modeling for protein sequence design☆74Jan 31, 2024Updated 2 years ago
- Design data and process for the AdaptyvBio protein design competition☆11Dec 11, 2024Updated last year
- DE-STRESS is a model evaluation pipeline that aims to make protein design more reliable and accessible.☆31Mar 4, 2025Updated last year
- ☆47Sep 16, 2024Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Deep learning framework for protein sequence design from a backbone scaffold that can leverage the molecular context including non-protei…☆49Nov 4, 2025Updated 6 months ago
- A compilation of deep learning methods for protein design☆96Nov 5, 2022Updated 3 years ago
- Fast protein structure searching or your money back☆119Apr 13, 2026Updated last month
- Code for our paper "Protein sequence design with a learned potential"☆83Sep 8, 2023Updated 2 years ago
- This repository contains code for the paper: "Tertiary motifs as building blocks for the design of protein-binding peptides"☆21Jan 15, 2024Updated 2 years ago
- Implementation of Protein Invariant Point Packer (PIPPack)☆35May 28, 2024Updated 2 years ago
- PDBench is a dataset and software package for evaluating fixed-backbone sequence design algorithms.☆32Jan 17, 2023Updated 3 years ago
- ☆15Mar 28, 2025Updated last year
- ☆15Sep 29, 2025Updated 8 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Code for our paper "Protein sequence design with a learned potential"☆34Aug 5, 2021Updated 4 years ago
- Using Rotamer Interaction Fields from RIFGen/Dock in python☆18May 2, 2021Updated 5 years ago
- Some scripts that I keep using over and over.☆21Jul 5, 2025Updated 10 months ago
- Protein design and sculpting using Rosetta and Deep learning methods (RFDiff and Alphafold2)☆55Updated this week
- This repository contains a set of scripts for performing singular value decomposition on protein multiple sequence alignments, and analyz…☆11Aug 12, 2024Updated last year
- Improved protein complex prediction with AlphaFold-multimer by denoising the MSA profile☆72Apr 13, 2026Updated last month
- ☆98Oct 14, 2025Updated 7 months ago
- All-atom protein generation using latent diffusion, with compositional function and taxonomic prompts. http://bit.ly/plaid-proteins☆125May 27, 2025Updated last year
- Physical energy function for protein sequence design☆38May 6, 2023Updated 3 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Protein hallucination and inpainting with RoseTTAFold☆281Mar 30, 2023Updated 3 years ago
- ☆20Oct 4, 2022Updated 3 years ago
- Neural network model for prediction of amino-acid sequence from a protein backbone structure☆25Mar 5, 2025Updated last year
- ☆92Sep 25, 2024Updated last year
- Template-based protein design with Raygun☆81Apr 12, 2026Updated last month
- Rosetta Funclib☆26May 9, 2020Updated 6 years ago
- ☆18May 15, 2025Updated last year
- Controlling the usage of hydrophobic residues on AfDesign for binder peptide design with AlphaFold hallucination protocol☆33Aug 10, 2023Updated 2 years ago
- Bayesian Optimization with Pretrained Protein Sequence Models☆56Jul 27, 2024Updated last year
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Protein Structure Archiver☆15Sep 10, 2025Updated 8 months ago
- ☆74Feb 13, 2026Updated 3 months ago
- Python rich client for visual protein Sequence to Structure Analysis☆20Mar 31, 2026Updated last month
- All-Atom (Including Hydrogen!) Ligand-Conditioned Protein Sequence Design & Sidechain Packing GNN☆29May 10, 2026Updated 2 weeks ago
- A collection of *fold* tools☆305Aug 8, 2025Updated 9 months ago
- ☆38Oct 16, 2024Updated last year
- Generates consistent PSSM and/or PDB files for protein-protein complexes☆20Jun 26, 2022Updated 3 years ago