532 projects whose own agent configuration covers scientific. These are not mods to install — they are how the maintainers of these repositories tell an agent what to do, and what to avoid.
All projects Building agents7,410Claude Code6,578Data and AI3,695Backend and APIs3,487Languages3,404Planning3,188Git and workflow3,106Code review2,712Memory and context2,351Testing2,325Research2,289DevOps and cloud2,283
Any agent Claude CodeCodexOpenCodeGitHub CopilotGemini CLICursorWindsurfKiro
| Project | Stars | Configures | Files | Always loaded |
|---|---|---|---|---|
| Wuxb02/medi-agent-swarm Multi-agent intelligent Q&A assistant / skill-agent capability integration / three-layer m | 5 | Claude Code, Codex, OpenCode | 11 | 8,482 tok |
| septract/acl2-mcp | 5 | Claude Code | 1 | 986 tok |
| cyanheads/protein-mcp-server npmjs.com Federated protein structure & annotation across experimental (PDB) and predicted (AlphaFol | 5 | Claude Code, Codex, OpenCode | 2 | 13,668 tok |
| cyanheads/cdc-health-mcp-server npmjs.com Search and query CDC public health data — mortality, vaccinations, surveillance, behaviora | 5 | Claude Code | 1 | 8,242 tok |
| SPYfighting/my-academic-skills Agent skills for research work. Gated, human-in-the-loop protocols where every expert judg | 5 | Claude Code, Codex, OpenCode | 2 | 1,537 tok |
| badchars/satellite-mcp npmjs.com Full-Spectrum Geospatial Intelligence MCP Server — 171 tools across 27 categories: satelli | 5 | Claude Code | 1 | 349 tok |
| MrSGSA/math-modeling-skill-dify A mathematical modeling Agent Skill and Dify Jiuku multimodal MCP bridge that can be dragg | 4 | Claude Code, Codex, OpenCode | 2 | 881 tok |
| u9401066/nsforge-mcp Neurosymbolic Forge — an MCP server that turns concepts into verifiable, traceable formula | 4 | Claude Code, Codex, GitHub Copilot, OpenCode | 23 | 5,925 tok |
| 45ck/open-genome-agent Local-first DNA and VCF analysis copilot for evidence-bound genomics workflows, confidence | 4 | Claude Code, Codex, OpenCode | 22 | 1,422 tok |
| AMDResearch/ai4science-studio How-to guides and AMD/ROCm optimization recipes for open AI-for-science models. | 4 | Claude Code, Cursor | 33 | 1,388 tok |
| Rebell-Leader/SpatialAI_MCP Empowering spatial transcriptomics research by providing AI agents with a standardized int | 4 | Claude Code, Codex, GitHub Copilot, Gemini CLI, OpenCode | 8 | 9,039 tok |
| agtm1199/uber-polya agtm1199.github.io A universal problem-solving skill for code agents (e.g. Claude, Codex), inspired by George | 4 | Claude Code, Codex, GitHub Copilot, OpenCode | 3 | 3,214 tok |
| cdeistopened/ask-huberman Ask Huberman — Claude Code plugin for Huberman Lab podcast. 12 interactive skills, 56 fram | 4 | Claude Code | 1 | 1,016 tok |
| codewithcheese/jupyter-kernel-mcp MCP server for stateful Jupyter kernel development with multi-kernel support | 4 | Claude Code | 1 | 285 tok |
| aws-samples/sample-laboratory-data-transformation-mcp | 4 | Claude Code, Codex | 1 | — |
| Cadasto/openehr-assistant-plugin cadasto.github.io openEHR assistant AI plugin suite with Skills, commands, and MCP server configuration for | 4 | Claude Code, Codex, GitHub Copilot, OpenCode | 3 | 6,386 tok |
| StepFunctionLLC/mcp-server-cantera An MCP server wrapped around Cantera to facilitate use by an LLM | 4 | Claude Code, Codex, GitHub Copilot, OpenCode | 3 | 2,463 tok |
| cyanheads/brapi-mcp-server npmjs.com A collaborative BrAPI v2.1 workspace for multi-agent research via MCP. Search studies, ger | 3 | Claude Code, Codex, OpenCode | 2 | 16,236 tok |
| dengxuhui/igpsport-mcp pypi.org A local MCP server that brings iGPSport cycling data into LLM clients, with training metri | 3 | Claude Code | 1 | 2,436 tok |
| SFETNI/Scientific-Writing-Skills-Claude-Code-Codex Human-in-the-loop quality-control framework for AI-assisted scientific manuscript preparat | 3 | Claude Code | 1 | 1,131 tok |
| liliwen88/doctor.skill Family Health Doctor — AI Medical Assistant Skill / Family Health Doctor · AI Medical Assi | 3 | Claude Code | 1 | 1,105 tok |
| SVerITG/Metis A Research Cortex. A research companion for Claude. Your library, notes & memory stay on y | 3 | Claude Code, Codex, OpenCode | 43 | 9,723 tok |
| kmaneesh/biopython-mcp MCP interface to BioPython | 3 | Claude Code | 1 | 1,210 tok |
| u9401066/pharmacy-mcp Pharmacy MCP Server - Drug information, dosage calculators, and interaction checkers via M | 3 | Claude Code, Codex, GitHub Copilot, OpenCode | 43 | 2,916 tok |
| MCPmed/allenbrain-mcp A comprehensive Model Context Protocol (MCP) server for querying the Allen Institute for B | 3 | Claude Code | 1 | 594 tok |
| Sage-Bionetworks/synapse-mcp synapse.org A Model Context Protocol (MCP) server that enables AI agent access to Synapse. Deployed in | 3 | Claude Code | 1 | 1,295 tok |
| AiAgentKarl/aviation-mcp-server MCP server for aviation data — Live flight tracking, airport weather, airline info | 3 | Claude Code | 1 | 273 tok |
| gregario/astronomy-oracle Celestial object catalog and observing session planner MCP server | 3 | Claude Code | 1 | 250 tok |
| zachswift615/audio-analysis-mcp | 3 | Claude Code | 3 | 685 tok |
| puran-water/water-chemistry-mcp Consolidated into PuranOS — see github.com/puran-water/puranos-public | 3 | Claude Code | 1 | 5,898 tok |
| Bokai-Zhao/Pathology-Wiki | 3 | Claude Code | 6 | 8,365 tok |
| valenZW/cst-sim-agent A Claude Code plugin turning CST Studio Suite into a conversational electromagnetic simula | 3 | Claude Code, Codex, OpenCode | 1 | 2,419 tok |
| andylbrummer/math-mcp GPU-accelerated MCP servers for computational mathematics, physics simulations, and machin | 2 | Claude Code | 2 | 974 tok |
| cyanheads/astronomy-mcp-server npmjs.com Offline observational astronomy — planet and moon positions, rise/set, phases, eclipses, a | 2 | Claude Code, Codex, OpenCode | 2 | 14,850 tok |
| wei-ai-lab/clinical-trial-design npmjs.com Claude Code plugin & MCP server for Phase 2/3 clinical trial design. 9 tools: single-prima | 2 | Claude Code, Codex, OpenCode | 1 | 4,731 tok |
| taehojo/alphagenome-mcp MCP server for AI-powered genomic variant analysis | 2 | Claude Code | 1 | 952 tok |
| dtunai/agent-skills-for-compute Agent-optimized skills for the full LLM lifecycle — pre-training, post-training (RL/DPO/RL | 2 | Claude Code, Codex, OpenCode | 2 | 698 tok |
| Sliky1/lagrangian-skills Agent Skill for constrained optimization via ALM/ADMM/KKT — with adversarial guards, COOP | 2 | Claude Code | 1 | 236 tok |
| shihabshahrier/manim-coding-skill AI STEM animation skill — ManimGL for coding agents | 2 | Claude Code, Codex, GitHub Copilot, Gemini CLI, OpenCode | 4 | 1,024 tok |
| Stephen-studying/tech-route-maker Evidence-grounded editable technical route diagrams for research and engineering projects. | 2 | Claude Code, Codex, GitHub Copilot, Gemini CLI, OpenCode | 4 | 1,476 tok |
| Dariolex/pubmed-search-agent Search PubMed in plain English: NL query translation, MeSH resolution, semantic relevance | 2 | Claude Code | 2 | 3,580 tok |
| responsible-genai-hackweek/nicer-nisar exploring agents and nisar data | 2 | Claude Code, Codex, OpenCode | 4 | 172 tok |
| gqy20/genome-mcp pypi.org | 2 | Claude Code | 1 | 2,957 tok |
| cacity/ResearchBrain Windows-first, local-first AI research literature workspace: supports incremental Zotero s | 2 | Claude Code, Codex | 6 | — |
| MacromNex/boltz_mcp Boltz2 MCP server for protein structure and affinity prediction | 2 | Claude Code | 1 | 1,890 tok |
| MacromNex/bindcraft_mcp BindCraft MCP server for de novo protein binder design | 2 | Claude Code | 1 | 737 tok |
| MacromNex/boltzgen_mcp BoltzGen MCP server for protein binder design | 2 | Claude Code | 1 | 1,058 tok |
| Joe-Heffer/trainer An open-source agentic AI personal trainer for fitness and health. | 2 | Claude Code | 1 | 1,005 tok |
| Jeny-Liu/claude-code-biology-research ?? A comprehensive guide to using Claude Code as an AI-powered assistant for computational | 2 | Claude Code | 1 | — |
| meleantonio/AC4E_Pavia Participant materials for Agentic Coding for Economists, University of Pavia 2026 | 2 | Claude Code, Codex, OpenCode | 12 | 259 tok |