Topological Data Analysis on protein structures from crystalized structures and AlphaFold DB.
☆12Feb 4, 2026Updated 8 months ago
Alternatives and similar repositories for protTDA
Users that are interested in protTDA are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Utility scripts to generate and evaluate parametrically guided beta barrel protein backbone structures.☆13Nov 14, 2025Updated 11 months ago
- Generative diverse protein backbones by protein language model☆35Feb 27, 2026Updated 8 months ago
- ☆10Apr 12, 2023Updated 3 years ago
- Allosteric design of proteins using allosteric pathways, stability calculations, and normal mode analysis☆12Jan 11, 2026Updated 9 months ago
- Scripts to benchmark and train foldseek☆41Jun 17, 2026Updated 4 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.
- Official repo for paper "AlphaFold-Multimer accurately captures interactions and dynamics of intrinsically disordered protein regions"☆17Dec 8, 2024Updated last year
- Add CMAP parameters into common AMBER prmtop file☆14Sep 12, 2021Updated 5 years ago
- ☆27Feb 10, 2024Updated 2 years ago
- [ICML 2024] Floating Anchor Diffusion Model for Multi-motif Scaffolding☆35Aug 23, 2024Updated 2 years ago
- NeurIPS 2023 Spotlight paper: Full atom protein pocket design via iterative refinement☆50Oct 28, 2023Updated 3 years ago
- Implementation of methods to sample from Boltzmann distributions☆22Jan 24, 2023Updated 3 years ago
- Deconvolving mutation effects on protein stability and function with disentangled protein language models☆18May 15, 2026Updated 5 months ago
- ☆18Aug 28, 2023Updated 3 years ago
- ☆11Oct 7, 2025Updated 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.
- Coarse-grained molecular dynamics for protein physics☆49Sep 15, 2017Updated 9 years ago
- Topological Data Analysis using Contour Trees☆20Sep 16, 2025Updated last year
- ⚠️ Deprecated — use pdb_cpp instead. Python library for simple operations on PDB/mmCIF coordinate files.☆12Apr 1, 2026Updated 6 months ago
- Gibbs sampling for expanded ensembles and replica exchange simulations☆11Jun 1, 2014Updated 12 years ago
- Fast and accurate protein domain segmentation using Invariant Point Attention☆48May 22, 2025Updated last year
- A simplified implementation of DSSP algorithm for PyTorch and NumPy☆106Jun 9, 2025Updated last year
- Open-source Deep Learning Framework for Allosteric Pocket Prediction☆17Jul 31, 2026Updated 2 months ago
- List of papers on protein binding site prediction☆11Aug 11, 2023Updated 3 years ago
- ☆10Jul 3, 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.
- ☆11Mar 27, 2026Updated 7 months ago
- A dataset for training and benchmarking deep learning models for RNA structure prediction☆72May 8, 2026Updated 5 months ago
- Implementation of Differentiable Molecular Simulations with torchMD.☆15Oct 9, 2023Updated 3 years ago
- ☆19Dec 23, 2024Updated last year
- Wrapper to protein secondary structure calculation packages☆13Oct 20, 2026Updated last week
- A package to create, visualize, and analysis PDB-derived pseudo-ensembles.☆12Jan 7, 2026Updated 9 months ago
- [NeurIPS 2025 spotlight] Efficient factorized variant of the IPA module.☆47Nov 14, 2025Updated 11 months ago
- ☆11Nov 19, 2021Updated 4 years ago
- ☆12May 3, 2025Updated last year
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Kuhlman Lab Installation of AlphaFold3☆42Oct 19, 2026Updated last week
- ☆16Feb 13, 2026Updated 8 months ago
- Topological Data Analysis on Convolutional Neural Network activations☆12Sep 23, 2016Updated 10 years ago
- We introduce a differentiable approach to phylogenetic tree construction, optimizing tree and ancestral sequences in its original represe…☆21Apr 2, 2026Updated 6 months ago
- Topological Data Analysis of a Financial Time Series for insights from Landscapes for detecting Financial Crashes☆13Mar 14, 2018Updated 8 years ago
- Benchmarks for reading and interpreting mmCIF files☆10Aug 30, 2021Updated 5 years ago
- This repository is for topologic and geometric data analysis.☆13Jul 2, 2022Updated 4 years ago