Metrics to evaluate distributional coverage of generative models of protein structures.
☆19Aug 13, 2025Updated 6 months ago
Alternatives and similar repositories for protein_shapes
Users that are interested in protein_shapes are comparing it to the libraries listed below
Sorting:
- ☆18Jan 14, 2026Updated last month
- ☆33Oct 14, 2024Updated last year
- Explore protein fold space with deep generative models☆16Aug 5, 2024Updated last year
- Sidechain conditioning and modeling for full-atom protein sequence design☆135Nov 11, 2025Updated 3 months ago
- Some scripts that I keep using over and over.☆21Jul 5, 2025Updated 7 months ago
- Finding patch of conserved amino acid sites in 3D structure☆13Apr 13, 2025Updated 10 months ago
- Display PackedPose objects, Pose objects, or PDB files within a Jupyter notebook and Google Colab☆11Oct 16, 2022Updated 3 years ago
- ☆74Feb 13, 2026Updated 2 weeks ago
- ☆47Sep 16, 2024Updated last year
- ProtNote is a multimodal deep learning model that leverages free-form text to enable both supervised and zero-shot protein function predi…☆58Apr 29, 2025Updated 10 months ago
- Structure prediction of alternative protein conformations☆82Feb 24, 2025Updated last year
- ☆17Aug 20, 2024Updated last year
- Source code for RNA-FrameFlow: SE(3) Flow Matching for 3D RNA Backbone Design☆93Oct 15, 2025Updated 4 months ago
- Utility for building inverse rotamer assemblies out of a Rosetta matcher/enzdes constraint file.☆26Mar 8, 2025Updated 11 months ago
- [ICML 25] We train and evaluate SAEs to identify interpretable features in pLMs and show their potential for scientific discovery.☆123Jan 16, 2026Updated last month
- ☆31Dec 12, 2024Updated last year
- Benchmarking uncertainty quantification methods on proteins.☆21Jan 28, 2025Updated last year
- Collective variables by artificial neural networks☆10Mar 16, 2022Updated 3 years ago
- ☆13Jul 17, 2025Updated 7 months ago
- Updated Protpardelle models with more robust motif scaffolding and multichain support☆70Updated this week
- ☆37Dec 21, 2023Updated 2 years ago
- Results and data from the pilot round of the Protein Engineering Tournament☆30Mar 25, 2025Updated 11 months ago
- ☆18Oct 30, 2023Updated 2 years ago
- Protein Structure Archiver☆13Sep 10, 2025Updated 5 months ago
- ML-based molecular representation models using PyTorch☆16Updated this week
- ☆146Jul 16, 2025Updated 7 months ago
- A high performance drop-in replacement for Biotite's PDBFile.☆41May 27, 2025Updated 9 months ago
- TMol☆53Updated this week
- Implementation of FlowSite and HarmonicFlow from the paper "Harmonic Self-Conditioned Flow Matching for Multi-Ligand Docking and Binding …☆105Jul 30, 2024Updated last year
- Neurally-derived Potts models for protein design, inspired by dTERMen☆14Aug 23, 2022Updated 3 years ago
- Codebase of paper "Structure Language Models for Protein Conformation Generation" (ICLR'25)☆74Feb 24, 2025Updated last year
- ☆27Aug 8, 2025Updated 6 months ago
- ☆20Sep 19, 2025Updated 5 months ago
- Implementation of Protein Invariant Point Packer (PIPPack)☆35May 28, 2024Updated last year
- Design a local part of a protein☆20Jan 12, 2023Updated 3 years ago
- Resources for the BioML Challenge 2024: Bits to Binders☆18Aug 24, 2024Updated last year
- Fast protein structure searching or your money back☆118Jan 14, 2026Updated last month
- Structure-conditioned masked language modeling for protein sequence design☆71Jan 31, 2024Updated 2 years ago
- Diffusion-based all-atom protein generative model.☆232Aug 27, 2025Updated 6 months ago