A package to create, visualize, and analysis PDB-derived pseudo-ensembles.
☆12Jan 7, 2026Updated 6 months ago
Alternatives and similar repositories for EnsemblePDB
Users that are interested in EnsemblePDB are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- List of papers on protein binding site prediction☆11Aug 11, 2023Updated 2 years ago
- ☆16Dec 10, 2024Updated last year
- EnsembleFlex - Flexibility Analysis of Structure Ensembles☆19Sep 10, 2025Updated 10 months ago
- Graphical Representation of Ancestral Sequence Predictions☆14Mar 6, 2023Updated 3 years ago
- ☆15Jun 25, 2026Updated last month
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Code for running PottsMPNN to generate sequences and predict energies☆23Jun 20, 2026Updated last month
- pdbx is a parser module in python for structures of the protein data bank in the mmcif format☆31Aug 9, 2024Updated last year
- Molecular dynamics without molecules: searching the conformational space of proteins with generative neural networks☆10Jun 13, 2022Updated 4 years ago
- Repository for "Nearest neighbor search on embeddings rapidly identifies distant protein relations"☆13Apr 2, 2023Updated 3 years ago
- ☆18Aug 28, 2025Updated 11 months ago
- ☆90Nov 18, 2025Updated 8 months ago
- Explore protein fold space with deep generative models☆16Aug 5, 2024Updated last year
- ☆12May 3, 2025Updated last year
- bakerlab pymol scripts☆27Feb 6, 2020Updated 6 years 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.
- Clusters protein chains based on CA distance difference☆18Jul 22, 2026Updated last week
- Deep learning + physical modeling for 3D protein metal ion binding prediction☆14Feb 24, 2025Updated last year
- Some notes (cookbook) for pyMol. Protein Crystallography course.☆17Jun 19, 2021Updated 5 years ago
- Utility scripts to generate and evaluate parametrically guided beta barrel protein backbone structures.☆13Nov 14, 2025Updated 8 months ago
- Implementation of MapDiff: "Mask-prior-guided denoising diffusion improves inverse protein folding" in PyTorch☆48Jul 11, 2025Updated last year
- A list of manuscripts/tools using diffusion on biological enttieis☆100Oct 5, 2023Updated 2 years ago
- Official repo for paper "AlphaFold-Multimer accurately captures interactions and dynamics of intrinsically disordered protein regions"☆17Dec 8, 2024Updated last year
- Generative diverse protein backbones by protein language model☆35Feb 27, 2026Updated 5 months ago
- 这里提供了一个yaml可以通过conda来快速无痛一键安装ESMfold，算是已经踩过所有通过官方安装遇到的暗坑了。☆19Jan 31, 2024Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Histidine Protonation State Optimizer for setting up MD simulations based on semi-empirical QM resonance☆20Mar 6, 2026Updated 4 months ago
- Najmanovich Research Group Toolkit for Elastic Networks☆13Apr 5, 2023Updated 3 years ago
- Diffusion-based all-atom protein generative model.☆237Aug 27, 2025Updated 11 months ago
- ☆15Jun 19, 2026Updated last month
- A Python package to manage protein design workflows on computing clusters and local machines. Documentation can be found here: https://pr…☆44Updated this week
- Python framework for doing ancestral sequence reconstruction☆44Jul 3, 2026Updated 3 weeks ago
- Kuhlman Lab Installation of AlphaFold3☆42Mar 26, 2026Updated 4 months ago
- Code for generating ensembles with IDPFold2☆22Updated this week
- A simplified implementation of DSSP algorithm for PyTorch and NumPy☆104Jun 9, 2025Updated 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.
- ☆18Aug 28, 2023Updated 2 years ago
- Deconvolving mutation effects on protein stability and function with disentangled protein language models☆18May 15, 2026Updated 2 months ago
- Rank binders by structure modeling☆17Apr 10, 2026Updated 3 months ago
- ☆13Jul 11, 2026Updated 2 weeks ago
- ☆22Mar 2, 2026Updated 4 months ago
- A protein structure dataset that combines 3D atomic coordinates with biophysical and evolutionary properties for every atom in every "cle…☆38Jul 25, 2024Updated 2 years ago
- Cython implementation of PDB -> DataFrame parsing☆34May 23, 2026Updated 2 months ago