iambic-therapeutics / np-benchView external linksLinks
A benchmark for 3D biomolecular structure prediction models
☆69May 11, 2025Updated 9 months ago
Alternatives and similar repositories for np-bench
Users that are interested in np-bench are comparing it to the libraries listed below
Sorting:
- NeuralPLexer: State-specific protein-ligand complex structure prediction with a multi-scale deep generative model☆322Oct 6, 2025Updated 4 months ago
- Structure-conditioned masked language modeling for protein sequence design☆70Jan 31, 2024Updated 2 years ago
- Pytorch implementation for ICML 2024 paper Proteus: Exploring Protein Structure Generation for Enhanced Designability and Efficiency.☆85Jun 23, 2024Updated last year
- BioLiP2 database curation and web interface☆29Jun 19, 2025Updated 7 months ago
- ☆134Jun 3, 2025Updated 8 months ago
- Implementation of Protein Invariant Point Packer (PIPPack)☆35May 28, 2024Updated last year
- Massively-Parallel Natural Extension of Reference Frame☆33Jan 18, 2023Updated 3 years ago
- Baseline model for PPB-Affinity benchmark data☆34May 21, 2025Updated 8 months ago
- A Score-Only Adaptation of AlphaFold3 for Biomolecular Structure Evaluation☆110Jan 28, 2026Updated 2 weeks ago
- ☆787May 27, 2025Updated 8 months ago
- ☆213Mar 2, 2024Updated last year
- Code and notebook for our paper "Assessing interaction recovery of predicted protein-ligand poses"☆19Oct 2, 2024Updated last year
- ☆14Sep 19, 2024Updated last year
- protein structure generation with sparse all-atom denoising models☆59Dec 11, 2025Updated 2 months ago
- All-atom protein generation using latent diffusion, with compositional function and taxonomic prompts. http://bit.ly/plaid-proteins☆120May 27, 2025Updated 8 months ago
- Public Release of ProGen3 family of Models☆100Jul 21, 2025Updated 6 months ago
- Database of Interacting Protein Structures (DIPS)☆104Jan 26, 2024Updated 2 years ago
- Plausibility checks for generated molecule poses.☆354Feb 9, 2026Updated last week
- Scripts to run AlphaFold3, Boltz-1 and Chai-1 with MMseqs2 MSAs and custom templates.☆101Updated this week
- Public RFDiffusionAA repo☆464Jul 9, 2024Updated last year
- A geometric flow matching model for generative protein-ligand docking and affinity prediction. (ISMB 2025)☆126Sep 3, 2025Updated 5 months ago
- A series of scripts that facilitate the prediction of user-defined protein structural properties using AlphaFold2☆11Aug 28, 2023Updated 2 years ago
- Composing Unbalanced Flows for Flexible Docking and Relaxation (ICLR 2025)☆54Jun 19, 2025Updated 7 months ago
- Webserver & command-line tool for search of APO (unbound) protein structures from HOLO (bound) forms and vice versa. http://apoholo.cz☆14Jun 14, 2024Updated last year
- Diffusion-based all-atom protein generative model.☆230Aug 27, 2025Updated 5 months ago
- repo for DynamicBind: Predicting ligand-specific protein-ligand complex structure with a deep equivariant generative model☆282Dec 23, 2025Updated last month
- ☆52Sep 19, 2025Updated 4 months ago
- ☆208Apr 21, 2025Updated 9 months ago
- Compressing protein structures effectively with torsion angles☆186Updated this week
- Official code repository for the paper "ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers"☆127Nov 19, 2025Updated 2 months ago
- ☆65Sep 14, 2023Updated 2 years ago
- MaSIF-neosurf: surface-based protein design for ternary complexes.☆167Feb 6, 2026Updated last week
- Protein Ligand INteraction Dataset and Evaluation Resource☆271Dec 6, 2025Updated 2 months ago
- It's a package for evaluation of predicted poses, right?☆73Jan 16, 2026Updated 3 weeks ago
- Aligned Diffusion Schroedinger Bridges (UAI 2023)☆13Sep 18, 2025Updated 4 months ago
- ☆12Nov 22, 2024Updated last year
- Toward High-Accuracy Open-Source Biomolecular Structure Prediction.☆1,573Feb 9, 2026Updated last week
- ☆55Nov 25, 2025Updated 2 months ago
- workflow used to prepare PPB-Affinity database☆28Aug 22, 2024Updated last year