Toolkit for alphafold3 input and output files
☆103Jun 15, 2026Updated 2 weeks ago
Alternatives and similar repositories for alphafold3_tools
Users that are interested in alphafold3_tools are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A toolkit developed to predict and analyze PROTAC-mediated ternary complexes using AlphaFold3 and Boltz-1.☆42Jul 17, 2025Updated 11 months ago
- Structure prediction and design of proteins with noncanonical amino acids☆138Feb 1, 2026Updated 5 months ago
- Plugin for folding sequences directly in PyMOL☆29Aug 5, 2025Updated 10 months ago
- Diffusion-based all-atom protein generative model.☆237Aug 27, 2025Updated 10 months ago
- Boltzmann-ranked alternative protein conformations from reduced-MSA AlphaFold2☆62Apr 6, 2026Updated 2 months ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- ☆91Sep 25, 2024Updated last year
- ☆56Mar 12, 2026Updated 3 months ago
- Modelling protein conformational landscape with Alphafold☆60Aug 29, 2025Updated 10 months ago
- Scripts to run AlphaFold3, Boltz-2, Chai-1, OpenFold3, Protenix & RF3 with MMseqs2 MSAs and custom templates.☆113Updated this week
- Official repo for paper "AlphaFold-Multimer accurately captures interactions and dynamics of intrinsically disordered protein regions"☆17Dec 8, 2024Updated last year
- Protein-ligand structure prediction☆240Jul 31, 2025Updated 11 months ago
- ☆17Aug 20, 2024Updated last year
- This repository contains the AlphaCutter.py for the removal of non-globular regions from predicted protein structures.☆15Jul 25, 2023Updated 2 years ago
- AlphaFold Meets Flow Matching for Generating Protein Ensembles☆531Mar 22, 2026Updated 3 months ago
- 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 Universal Representations of Intermolecular Interactions with ATOMICA☆225Apr 13, 2026Updated 2 months ago
- NeuralPLexer: State-specific protein-ligand complex structure prediction with a multi-scale deep generative model☆331Oct 6, 2025Updated 8 months ago
- Improved protein complex prediction with AlphaFold-multimer by denoising the MSA profile☆73Apr 13, 2026Updated 2 months ago
- Official repository of EnzymeFlow☆102Dec 7, 2024Updated last year
- ☆142Jun 3, 2025Updated last year
- AlphaFold-initiated replica exchange protein docking☆92Jun 5, 2025Updated last year
- Structure prediction of alternative protein conformations☆85Feb 24, 2025Updated last year
- Sidechain conditioning and modeling for full-atom protein sequence design☆143Nov 11, 2025Updated 7 months ago
- ☆15Jun 3, 2025Updated last year
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- ☆90Nov 18, 2025Updated 7 months ago
- SubPEx (Sub-Pocket Explorer) is a tool to enhance ensemble (multiple-receptor/relaxed-complex) virtual screening. It uses weighted ensemb…☆18Jun 30, 2025Updated last year
- Predict multiple protein conformations using sequence clustering and AlphaFold2.☆187Oct 7, 2025Updated 8 months ago
- ☆33Mar 2, 2026Updated 4 months ago
- Protein structure diffusion model for unconditional protein generation and motif scaffolding☆193Jun 24, 2024Updated 2 years ago
- Explicit crosslinks in AlphaFold 3☆22Mar 17, 2025Updated last year
- Neural Iterative Selection-Expansion using LigandMPNN/LASErMPNN and Boltz-2x☆57May 11, 2026Updated last month
- Pytorch implementation for ICML 2024 paper Proteus: Exploring Protein Structure Generation for Enhanced Designability and Efficiency.☆90Jun 23, 2024Updated 2 years ago
- ☆47Sep 16, 2024Updated last year
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- PairMap: An Intermediate Insertion Approach for Improving the Accuracy of Relative Free Energy Perturbation Calculations for Distant Comp…☆17Mar 18, 2026Updated 3 months ago
- A model-context-protocol server for molecules.☆96Apr 20, 2025Updated last year
- P2DFlow: A Protein Ensemble Generative Model with SE(3) Flow Matching☆43May 22, 2025Updated last year
- ☆26Feb 4, 2025Updated last year
- Fast AlphaFold-Multimer based pipeline for Protein-Protein Interaction (PPI) screening☆41Sep 27, 2024Updated last year
- FAPLM: A Drop-in Efficient Pytorch Implementation of Protein Language Models☆167Mar 28, 2026Updated 3 months ago
- Homomer symmetry prediction from protein sequence☆45Mar 13, 2025Updated last year