Benchmark for Biophysical Sequence Optimization Algorithms
☆21Apr 15, 2026Updated this week
Alternatives and similar repositories for holo-bench
Users that are interested in holo-bench 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 Modular Architecture for Deep Learning Systems☆56May 23, 2025Updated 10 months ago
- Code for "Multi-Objective GFlowNets"☆19Jul 12, 2023Updated 2 years ago
- Code for multistep feedback covariate shift conformal prediction experiments in "Conformal Validity Guarantees Exist for Any Data Distrib…☆28Jun 28, 2024Updated last year
- Protein Design with Guided Discrete Diffusion☆141Feb 21, 2024Updated 2 years ago
- This repository implements Gibbs sampling with Graph-based Smoothing☆41May 29, 2024Updated last year
- 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 open-source of Antibody Design Using a Score-based Diffusion Model Guided by Evolutionary, Physical, and Geometric Constraints☆51Jun 30, 2025Updated 9 months ago
- Baseline model for PPB-Affinity benchmark data☆37May 21, 2025Updated 10 months ago
- Metrics for our protein design competitions.☆35Nov 1, 2024Updated last year
- Graphinity: Equivariant Graph Neural Network Architecture for Predicting Change in Antibody-Antigen Binding Affinity☆57Jul 9, 2025Updated 9 months ago
- Improved antibody structure-based design using inverse folding☆160Dec 9, 2025Updated 4 months ago
- Official code repository for the paper "ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers"☆128Nov 19, 2025Updated 5 months ago
- ☆31Feb 8, 2026Updated 2 months ago
- ☆10Aug 22, 2023Updated 2 years ago
- ☆53Feb 16, 2022Updated 4 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Conditioning diffusion models for scaffolding protein motifs. A repository for my master's dissertation.☆12Dec 10, 2024Updated last year
- ☆28Aug 26, 2025Updated 7 months ago
- Code to reproduce experiments in "Accelerating Bayesian Optimization for Protein Design with Denoising Autoencoders" (Stanton et al 2022)☆76May 19, 2024Updated last year
- Display PackedPose objects, Pose objects, or PDB files within a Jupyter notebook and Google Colab☆11Oct 16, 2022Updated 3 years ago
- A simple but powerful VSCode extension for visualizing protein structures using the Molstar framework.☆35Oct 17, 2025Updated 6 months ago
- This repo contains the codes for our paper Conditional Antibody Design as 3D Equivariant Graph Translation.☆104Apr 7, 2023Updated 3 years ago
- Baselines for Model-Based Optimization installation fixes and compatible with newer AMPERE+ GPUs (e.g. 3090)☆11Apr 30, 2023Updated 2 years ago
- Fitness landscape exploration sandbox for biological sequence design.☆171Feb 16, 2023Updated 3 years ago
- Code for RL-DIF☆16Jun 24, 2025Updated 9 months ago
- 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.
- [NeurIPS 2025 Spotlight] Implementation of "KLASS: KL-Guided Fast Inference in Masked Diffusion Models"☆29Jan 3, 2026Updated 3 months ago
- ☆17Dec 8, 2023Updated 2 years ago
- Results and data from the pilot round of the Protein Engineering Tournament☆30Mar 25, 2025Updated last year
- A package to create, visualize, and analysis PDB-derived pseudo-ensembles.☆10Jan 7, 2026Updated 3 months ago
- [NeurIPS 2025] Official code for "Tropical Attention: Neural Algorithmic Reasoning for Combinatorial Algorithms"☆29Oct 23, 2025Updated 5 months ago
- List of papers on protein binding site prediction☆11Aug 11, 2023Updated 2 years ago
- Biological prediction models made simple.☆50Mar 31, 2026Updated 2 weeks ago
- Deep Learning Library and Benchmark for Protein Sequence Learning (Bioinformatics 2025)☆43Mar 30, 2026Updated 3 weeks ago
- About Official PyTorch implementation of "Query-Efficient Black-Box Red Teaming via Bayesian Optimization" (ACL'23)☆15Jul 9, 2023Updated 2 years ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Diverse Genomic Embedding Benchmark☆51Sep 4, 2025Updated 7 months ago
- Local Interaction Score (LIS) for structure prediction analysis☆65Updated this week
- Official implementation of NeurIPS'23 paper "Sample-efficient Multi-objective Molecular Optimization with GFlowNets"☆20Dec 24, 2023Updated 2 years ago
- This package will help you perform a multiple minumum Monte Carlo conformer search as described in Chang et al., 1989. It is built to be …☆32Mar 9, 2026Updated last month
- Derivative-Free Guidance in Diffusion Models with Soft Value-Based Decoding. For controlled generation in DNA, RNA, proteins, molecules (…☆38Jan 7, 2026Updated 3 months ago
- Prediction of protein melting temperatures directly from sequences☆12Apr 16, 2024Updated 2 years ago
- ☆23Nov 28, 2025Updated 4 months ago