A command-line interface and Python library for generating AlphaFold3 input files.
☆41Jan 2, 2026Updated 5 months ago
Alternatives and similar repositories for af3cli
Users that are interested in af3cli are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Official repository of GENzyme☆64Nov 29, 2024Updated last year
- Utility scripts to generate and evaluate parametrically guided beta barrel protein backbone structures.☆13Nov 14, 2025Updated 6 months ago
- A Score-Only Adaptation of AlphaFold3 for Biomolecular Structure Evaluation☆124Jan 28, 2026Updated 4 months ago
- Energy-guided binder design pipeline built on BindCraft☆18Jun 6, 2025Updated last year
- Scoring function for interprotein interactions in AlphaFold2 and AlphaFold3☆240Jan 3, 2026Updated 5 months ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- Alphafold3 using mmseqs2-gpu for sequence query☆39Feb 9, 2026Updated 4 months ago
- Deep generative modeling of protein structural ensembles☆37May 27, 2026Updated last week
- Diffusion model based protein-ligand flexible docking method☆117Oct 30, 2024Updated last year
- Official repo for paper "AlphaFold-Multimer accurately captures interactions and dynamics of intrinsically disordered protein regions"☆17Dec 8, 2024Updated last year
- A Multi-modal System for Automated Mining of Protein-Ligand Bioactivity Data from Literature☆91May 9, 2026Updated 3 weeks ago
- ☆150Jul 16, 2025Updated 10 months ago
- code and source data for de novo design of Kemp elimination paper☆26Sep 18, 2025Updated 8 months ago
- Prediction of protein melting temperatures directly from sequences☆13Apr 16, 2024Updated 2 years ago
- workflow used to prepare PPB-Affinity database☆30Aug 22, 2024Updated last year
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- JAX translation of boltz☆28Aug 4, 2025Updated 10 months ago
- Toolkit for alphafold3 input and output files☆104Updated this week
- CARE: a Benchmark Suite for the Classification and Retrieval of Enzymes☆48Jun 17, 2025Updated 11 months ago
- ☆34Mar 2, 2026Updated 3 months ago
- Predict multiple protein conformations using sequence clustering and AlphaFold2.☆187Oct 7, 2025Updated 8 months ago
- Public RFDiffusionAA repo☆482Jul 9, 2024Updated last year
- A tool for 2D protein visualization aimed at improving the comparability of protein structures through standardized 2D visualizations.☆23Mar 13, 2026Updated 2 months ago
- [ICML 2024] Floating Anchor Diffusion Model for Multi-motif Scaffolding☆34Aug 23, 2024Updated last year
- A conditionally adapted protein language model for the generation of enzymes☆24Nov 26, 2024Updated last year
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Learning the language of protein-protein interactions☆150Apr 14, 2026Updated last month
- Template-based protein design with Raygun☆81Apr 12, 2026Updated last month
- Multimodal Pretraining for Unsupervised Protein Representation Learning☆22Jul 30, 2024Updated last year
- Sequence-Structure-Surface Model for Protein Fitness Prediction (S3F)☆52Dec 3, 2024Updated last year
- Pytorch implementation for ICML 2024 paper Proteus: Exploring Protein Structure Generation for Enhanced Designability and Efficiency.☆90Jun 23, 2024Updated last year
- Diffusion-based all-atom protein generative model.☆236Aug 27, 2025Updated 9 months ago
- ☆581Feb 6, 2025Updated last year
- Code for humanization of antibody and nanobody☆84Aug 28, 2025Updated 9 months ago
- pdbx is a parser module in python for structures of the protein data bank in the mmcif format☆31Aug 9, 2024Updated last year
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- A tutorial for Streamlined Alchemical Free Energy Perturbations with NAMD☆16Apr 3, 2026Updated 2 months ago
- DDGScan: an integrated parallel workflow for the in silico point mutation scan of protein☆49Mar 21, 2024Updated 2 years ago
- The official implementation of DiffAbXL benchmarked in the paper "Exploring Log-Likelihood Scores for Ranking Antibody Sequence Designs",…☆98Jun 11, 2025Updated 11 months ago
- AlphaFold-initiated replica exchange protein docking☆92Jun 5, 2025Updated last year
- Inference code for scalable emulation of protein equilibrium ensembles with generative deep learning☆824May 28, 2026Updated last week
- EnzyHTP is a python library that automates the complete life-cycle of enzyme modeling☆36May 11, 2026Updated 3 weeks ago
- ☆98Oct 14, 2025Updated 7 months ago