Research & science harnesses for AI agents
23 open-source Research & science harnesses an AI agent can use — MCP servers, SDKs, and adapters. Browse them on Loadbay. An agent can search these over Loadbay's MCP:
claude mcp add --transport http loadbay https://loadbay.xyz/api/mcp
→ Best Research & science harnesses (top picks, ranked)
- AI-Scientist — First end-to-end system for fully automated open-ended scientific discovery: generates ideas, runs experiments, and writes papers.
- STORM — Stanford knowledge-curation system that researches a topic via internet search and writes a full-length, cited report.
- paper-qa — High-accuracy RAG framework for answering questions from scientific papers with grounded citations.
- AlphaFold 3 — Official DeepMind inference pipeline for AlphaFold 3, predicting joint structures of proteins, nucleic acids, ligands, and ions.
- AI-Scientist-v2 — Agentic successor that uses progressive tree search to autonomously generate hypotheses, run ML experiments, and write manuscripts.
- Boltz — Open family of biomolecular interaction models for predicting protein and complex structures and binding affinity, an AlphaFold3-class tool.
- zotero-mcp — MCP server linking a Zotero research library to AI assistants for paper search, summaries, and citation analysis.
- Biomni — General biomedical AI agent that combines LLM reasoning, retrieval-augmented planning, and code execution over a biomedical toolbox.
- arxiv-mcp-server — An MCP server for searching and analyzing arXiv papers, so a research agent can pull and read the literature.
- ESM3 — EvolutionaryScale flagship protein language models (ESM3, ESM C) reasoning jointly over sequence, structure, and function.
- paper-search-mcp — MCP server to search and download academic papers across 20+ sources including arXiv, PubMed, bioRxiv, and Semantic Scholar.
- chemcrow-public — LLM chemistry agent that augments models with expert tools for synthesis planning and molecule discovery.
- Denario — A modular multi-agent system that assists with scientific research end to end.
- BioAgents — An AI-scientist framework for autonomous deep research in the biological sciences.
- GenoMAS — Multi-agent framework that automates gene-expression analysis workflows end to end.
- CASSIA — Multi-agent LLM framework for automated cell-type annotation of single-cell RNA-seq data.
- BuildArena — Benchmark where LLM agents design, build, and test rockets, cars, and bridges in a physics simulator from text goals.
- ProteinMCP — Agentic framework for autonomous protein design wrapping structure-prediction and sequence-design tools.
- cactus — LLM agent that leverages cheminformatics tools to answer chemistry questions with informed tool use.
- atlas — Bayesian optimization brain for self-driving laboratories that plans experiments for autonomous discovery.
- AlphaFold-MCP-Server — MCP server exposing the AlphaFold Protein Structure Database for structure-prediction analysis through agent tools.
- semantic-scholar-mcp — MCP server for searching and analyzing academic papers and citation graphs via the Semantic Scholar API.
- MatAgent — Physics-aware multi-agent LLM framework for accelerating materials-science discovery and optimization.