341 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 agents7,374Claude Code6,573Data and AI3,706Backend and APIs3,486Languages3,398Planning3,181Git and workflow3,100Code review2,701Memory and context2,354Testing2,311Research2,292DevOps and cloud2,282
Any agent Claude CodeCodexOpenCodeGitHub CopilotGemini CLICursorWindsurfKiro
| Project | Stars | Configures | Files | Always loaded |
|---|---|---|---|---|
| nickzren/opentargets-mcp MCP server for Open Targets data | 19 | Claude Code, Codex, OpenCode | 2 | 680 tok |
| machinavitalis/jaxonomy py.jaxonomy.com JAX-native simulation engine for hybrid dynamical systems — block-diagram modeling, ODE/DA | 19 | Claude Code, Codex, GitHub Copilot, Gemini CLI, OpenCode | 5 | 2,254 tok |
| SkyShannonProver/shannon-prover skyshannonprover.github.io LLM agents that write machine-checked cryptographic proofs in EasyCrypt (arXiv:2607.02847) | 19 | Claude Code, Codex, OpenCode | 4 | 2,653 tok |
| natnew/awesome-ai-scientists natnew.github.io A curated collection of resources for building “AI Scientist” systems: AI that assists sci | 18 | Claude Code, Codex, OpenCode | 2 | 4,113 tok |
| edwnh/dqmc | 18 | Claude Code, Codex, OpenCode | 7 | 1,920 tok |
| cybertronai/SutroYaro cybertronai.github.io SutroYaro — Sutro Group research workspace for energy-efficient AI training. Point any cod | 16 | Claude Code, Codex, Gemini CLI, OpenCode | 14 | 7,023 tok |
| HolobiomicsLab/asb-skill-collections holobiomicslab.cnrs.fr Curated, evidence-grounded skill and software-tool collections for scientific AI agents, g | 15 | Claude Code, Codex, GitHub Copilot, OpenCode | 3 | 2,554 tok |
| nickzren/biomed-agent Connecting AI to biomedical data | 15 | Claude Code, Codex, OpenCode | 2 | 1,135 tok |
| XBP-Europe/sagemath-mcp pypi.org Stateful SageMath MCP server: 37 tools for symbolic math, algebra, number theory, graphs a | 14 | Claude Code, Codex, OpenCode | 2 | 3,764 tok |
| BnJam/stac-mcp An MCP Server for STAC requests | 13 | Codex, GitHub Copilot, OpenCode | 2 | 5,711 tok |
| yusong652/yade-mcp pypi.org MCP server connecting AI agents to YADE — run DEM simulations through natural conversation | 13 | Claude Code, Codex, OpenCode | 2 | 1,379 tok |
| maweiruc/stat-toolkits-eif Documentation-first toolkit for deriving, validating, and auditing efficient influence fun | 13 | Codex, OpenCode | 1 | 1,072 tok |
| reason-healthcare/rh-skills An agentic workflow toolset providing superpowers for healthcare informaticists | 12 | Claude Code, Codex, OpenCode | 22 | 1,128 tok |
| u9401066/med-paper-assistant u9401066.github.io Auditable MCP + cross-agent harness for autonomous and human-guided academic writing—from | 12 | Claude Code, Codex, GitHub Copilot, OpenCode | 50 | 8,475 tok |
| jimezsa/opencolab opencolab.ai 🐙 Accelerating Scientific Discovery — Turn your research into an always-on autonomous lab | 11 | Claude Code, Codex, Gemini CLI, OpenCode | 3 | 5,041 tok |
| MustafaKadhim/Coding-Agent-Guidelines-Radiotherapy This is my personal coding guidelines optimized for radiotherapy research and inspired by | 11 | Claude Code, Codex, OpenCode | 2 | 4,472 tok |
| OATH-md/OathMCP mcp.oath.md Agent-native MCP server for evidence-backed clinical calculators. | 11 | Codex, OpenCode | 2 | 1,920 tok |
| Rezenders/scientific_writing_agent Template repo with agent's configuration for working in scientific papers | 11 | Claude Code, Codex, OpenCode | 2 | 3,489 tok |
| kucherenko/petropowers AI skills framework for petroleum engineering workflows, built on Superpowers foundation. | 11 | Claude Code, Codex, Gemini CLI, OpenCode | 3 | 1,347 tok |
| dengxu11111/dual-ai-paper-coach Claude Code writes the paper. Codex CLI independently reviews it. Together they produce a | 11 | Claude Code, Codex, OpenCode | 10 | 3,597 tok |
| hevangel/dvcon_ai_library DVCON AI library | 11 | Claude Code, Codex, OpenCode | 3 | 9,735 tok |
| ShangBioLab/SpatialClaw | 11 | Claude Code, Codex, OpenCode | 2 | 2,731 tok |
| SeequentEvo/evo-data-converters Convert data between geoscience formats and Evo geoscience objects to improve interoperabi | 11 | Claude Code, Codex, OpenCode | 6 | 1,656 tok |
| rnabioco/scraps rnabioco.github.io Single Cell RNA PolyA Site Discovery | 11 | Codex, OpenCode | 1 | 2,066 tok |
| MathGloss/MathGloss mathgloss.github.io | 11 | Codex, OpenCode | 1 | 2,222 tok |
| dcroote/lambs Local Analysis of mAb Sequences | 11 | Codex, OpenCode | 1 | 1,793 tok |
| Ching-Chiang/comsol-mcp | 11 | Claude Code, Codex, OpenCode | 2 | 2,253 tok |
| maxwell2732/codex-r-empirical-research A Codex R pipeline for reproducible empirical research by 朱晨 | Genetic social science rese | 11 | Claude Code, Codex, OpenCode | 38 | 4,355 tok |
| rlacombe/switchback-running switchback.run Ultrarunning training companion agent powered by Intervals.icu. | 10 | Claude Code, Codex, Gemini CLI, OpenCode | 16 | 14,404 tok |
| Mapika/nice-figures Soft-pastel, research-blog-style matplotlib figures as an installable Claude Code plugin. | 10 | Codex, OpenCode | 1 | 837 tok |
| LBurny/symkit-mcp It is an MCP server that lets AI agents perform step-by-step symbolic derivations: calcula | 10 | Claude Code, Codex, GitHub Copilot, OpenCode | 3 | 3,013 tok |
| TaoELi/FermiLink fermilink.org FermiLink: AI Agent Framework for Multidomain Autonomous Scientific Simulations and Optimi | 10 | Codex, OpenCode | 1 | 315 tok |
| bgreenwell/statlingo bgreenwell.github.io Explain Statistical Output with Large Language Models | 10 | Claude Code, Codex, OpenCode | 2 | 2,235 tok |
| Shiien/research-closure-harness | 10 | Claude Code, Codex, OpenCode | 4 | 1,468 tok |
| Chuan-Peng-Lab/SPE_Database | 10 | Codex, OpenCode | 2 | 4,814 tok |
| TaoELi/MaxwellLink maxwelllink.org A flexible framework for self-consistent EM-molecular simulations, powered by AI agent ski | 10 | Claude Code, Codex, Gemini CLI, OpenCode | 3 | 755 tok |
| quattro/jax-numerics-agent SKILLS.md definitions for JAX/Equinox based software development | 9 | Codex, OpenCode | 1 | 262 tok |
| huangzhonglv/hep-workflow A skill-based agent workflow for high-energy physics phenomenology: from model proposal th | 9 | Claude Code, Codex, OpenCode | 8 | 3,316 tok |
| YuliaNuzhnenko/bioinformatics-agent-skills The #1 open-source collection of scientific AI Agent Skills, tool specifications, and prom | 9 | Claude Code, Codex, OpenCode | 2 | 435 tok |
| gatordevin/avo Open reproduction of NVIDIA's AVO paper (arXiv:2603.24517): evolutionary search where an a | 9 | Claude Code, Codex, OpenCode | 2 | 1,178 tok |
| Aledon8/OpenLeukemia openleukemia.com OpenLeukemia is a patient-centered platform for organizing leukemia-related medical data, | 9 | Claude Code, Codex, GitHub Copilot, OpenCode | 9 | 2,788 tok |
| pengzhangzhi/superpowers-ml Skills that make your AI agent do ML research like a skeptical scientist, not a hype machi | 8 | Claude Code, Codex, Gemini CLI, OpenCode | 3 | 1,913 tok |
| whenpoem/aiscientist An AI-driven research workflow for generating ideas, running experiments, and writing scie | 8 | Claude Code, Codex, OpenCode | 6 | 1,865 tok |
| Utolaris/Stata-CLI Stata CLI for AI agents and coding agents (Codex, Claude Code, Cursor, OpenCode). Run Stat | 8 | Codex, OpenCode | 1 | 559 tok |
| fkguo/nds-mcp Nuclear Data Services MCP server — offline SQLite-backed nuclear physics data queries | 8 | Claude Code, Codex, OpenCode | 2 | 3,519 tok |
| aryaminus/astro astro-api-a2rc.onrender.com Astrology MCP server & Agent Skill — birth charts, transits, synastry across Western, Vedi | 8 | Claude Code, Codex, GitHub Copilot, Cursor, OpenCode | 4 | 1,589 tok |
| altmetric/altmetric-mcp MCP server for Altmetric APIs - retrieve citation metrics and research output data for AI | 7 | Claude Code, Codex, OpenCode | 2 | 3,292 tok |
| fmschulz/omics-skills fmschulz.github.io | 7 | Codex, OpenCode | 1 | 3,034 tok |
| VeryMath/co-mathematician Co-mathematician project for collaborative AI-assisted mathematical research. | 7 | Claude Code, Codex, OpenCode | 9 | 2,327 tok |
| keaven/gsDesignSkills keaven.github.io Claude Code skills for clinical trial design R packages (gsDesign, gsDesign2, rpact, graph | 7 | Claude Code, Codex, OpenCode | 2 | 524 tok |