Scientific instructions files

527 tagged Scientific, measured the same way as everything else here.

Browse within: bioinformatics 28model-context-protocol 15machine-learning 13cyanheads 12genomics 11drug-discovery 9Cheminformatics 7academic-writing 7ai-tools 7LaTeX 6astronomy 6claude-plugin 6ai-research 5calculator 5

acl2-mcp CLAUDE.md

242

septract/acl2-mcp

Instructions file

Instructions for septract/acl2-mcp, covering claude.md, project overview, architecture, core components and execution modes.

not rated 5 11mo ago A 986 tokens original BSD-3-Clause

crux AGENTS.md

244

mehdiforoozandeh/crux

Instructions file CodexOpenCode

AGENTS.md instructions for mehdiforoozandeh/crux, a project described as: A scientific-method lab notebook your AI agent drives — research as a tree of questions and falsifiable hypotheses in plain markdown, with an LLM literature wiki and a local browser GUI cockpit.

not rated 5 +1 4d ago A 586 tokens original MIT

badchars/satellite-mcp

Instructions file

Claude Code instructions for badchars/satellite-mcp, covering satellite-mcp — full-spectrum geoint mcp server, architecture, key rules, categories (27) and commands.

not rated 5 +1 3d ago A 349 tokens original MIT

mattmohandiss/cad-mcp-server

Instructions file CodexOpenCode

AGENTS.md instructions for mattmohandiss/cad-mcp-server, covering cad mcp server — agent guide, product rules, prerequisites, setup and common commands.

not rated 4 2d ago A 1,765 tokens original MIT

MrSGSA/math-modeling-skill-dify

Instructions file CodexOpenCode

A set of workspace instructions for a mathematical-modelling agent, including rules for replies, code, visualisations, papers, and a Dify knowledge base. Dify is a platform for connecting AI applications to stored information.

not rated 4 1mo ago A 736 tokens original MIT

45ck/open-genome-agent

Instructions file CodexOpenCode

Instructions for 45ck/open-genome-agent, covering agents.md, core policy, mission, mandatory rules and delegation rules.

not rated 4 2mo ago A 712 tokens original MIT

AMDResearch/ai4science-studio

Instructions file

Instructions for AMDResearch/ai4science-studio, covering claude.md, repository purpose, agent entry points (read these first), directory layout and model slug rule.

not rated 4 1mo ago A 1,388 tokens original MIT

Rebell-Leader/SpatialAI_MCP

Instructions file GitHub Copilot

Instructions for Rebell-Leader/SpatialAI_MCP, covering agents.md — openproblems spatial transcriptomics co-pilot, what this project is, ground truth: which mcp tools actually exist, domain rules (spatial transcriptomics) and coding standards.

not rated 4 2mo ago A 3,776 tokens original Apache-2.0

math-mcp AGENTS.md

252

codeprimate/math-mcp

Instructions file CodexOpenCode

Instructions for codeprimate/math-mcp, covering agents.md - development guide, quick start, setup (first time), daily workflow and critical requirements.

not rated 4 5mo ago A 1,069 tokens original MIT

cdeistopened/ask-huberman

Instructions file

Claude Code instructions for cdeistopened/ask-huberman, covering ask huberman — health & science coaching plugin, quick start, tutor skills (learn the science, then apply), utility and what's inside.

not rated 4 5mo ago A 1,016 tokens

codewithcheese/jupyter-kernel-mcp

Instructions file

Claude Code instructions for codewithcheese/jupyter-kernel-mcp, covering jupyter kernel mcp, multi-language support, key implementation notes, vendor documentation and tslab (typescript lab).

not rated 4 1y ago A 285 tokens

StepFunctionLLC/mcp-server-cantera

Instructions file GitHub Copilot

Copilot instructions for StepFunctionLLC/mcp-server-cantera, covering mcp-server-cantera copilot instructions, architecture & code structure, key developer workflows, environment & installation and running the server.

not rated 4 yesterday A 1,025 tokens original MIT

panoptes/panoptes-utils

Instructions file CodexOpenCode

AGENTS.md instructions for panoptes/panoptes-utils, covering ai agent guidelines for panoptes utilities, project overview, essential reading, project structure and development workflow.

not rated 4 yesterday A 7,145 tokens original MIT

rcsb-mcp AGENTS.md

258

rcsb/rcsb-mcp

Instructions file CodexOpenCode

Instructions for rcsb/rcsb-mcp, covering agents.md — working on the rcsb-mcp repo, layout, architecture & conventions, dev workflow and syntax check both core modules.

not rated 3 18d ago A 1,495 tokens original MIT

dengxuhui/igpsport-mcp

Instructions file

Project instructions for a local MCP server that lets an AI assistant analyze iGPSport cycling data using natural language. MCP is a standard way for AI applications to call external tools; the server also creates structured training workouts and sends them back to the iGPSport app.

not rated 3 2mo ago A 2,436 tokens original MIT

kmaneesh/biopython-mcp

Instructions file

Instructions for kmaneesh/biopython-mcp, covering claude.md, project overview, development commands, setup and running the server.

not rated 3 7mo ago A 1,210 tokens original MIT

synapse-mcp CLAUDE.md

264

Sage-Bionetworks/synapse-mcp

Instructions file

Instructions for Sage-Bionetworks/synapse-mcp, covering project, stack, commands, tool authoring and bm25 discovery transform.

not rated 3 14d ago A 1,295 tokens original MIT

At most 3 mods per repository are shown here, and a mod shipped inside a plugin is left to that plugin's page — the rest are on their repository pages: