scientific instructions

topocm/topocm_content

Instructions file CodexOpenCode

AGENTS.md instructions for topocm/topocm_content: This repository contains materials for a course on topology in condensed matter physics.

csml-rpi/Foam-Agent

Instructions file CodexOpenCode

Instructions for csml-rpi/Foam-Agent, covering agents.md, what is foam-agent?, build and run, environment setup and run a simulation.

K-Dense-AI/science-superpowers

Instructions file

Claude Code instructions for K-Dense-AI/science-superpowers, covering science superpowers — contributor guidelines, what this project is, design principles (read before changing skills), working on skills and general.

K-Dense-AI/science-superpowers

Instructions file Gemini CLI

Gemini CLI instructions for K-Dense-AI/science-superpowers, a project described as: Composable computational-science methodology skills for AI research agents — pre-registration over TDD. A science-domain reimplementation of Superpowers.

AtomFlow-AI/MoleCode

Instructions file CodexOpenCode

Instructions for AtomFlow-AI/MoleCode, covering agents.md — molecode, what this repo is, use the molecode skill, molecode-first rule and cli quick start.

NVlabs/SimFoundry

Instructions file CodexOpenCode

Instructions for NVlabs/SimFoundry, covering simfoundry — agent guide, what this repo does, environments, do not edit deps/ and the saved-scene contract.

apache/texera

Instructions file

Instructions for apache/texera: Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to you under the Apache License, Version 2.0 (the…

Yeachan-Heo/My-Jogyo

Instructions file CodexOpenCode

AGENTS.md instructions for Yeachan-Heo/My-Jogyo, covering agents.md - gyoshu repository guide, the agent team, model configuration, available model aliases and upgrading to premium models.

svd-ai-lab/sim-cli

Instructions file

Instructions for svd-ai-lab/sim-cli, covering claude.md, project overview, commands, install and tests.

SkBlaz/py3plex

Instructions file GitHub Copilot

Instructions for SkBlaz/py3plex, covering github copilot instructions for py3plex, project overview, repository structure, key code patterns and network creation.

dualverse-ai/station

Instructions file

Instructions for dualverse-ai/station, a project described as: The Station is an open-world multi-agent environment where AI agents pursue autonomous scientific discovery and build a shared literature.

dualverse-ai/station

Instructions file Gemini CLI

Instructions for dualverse-ai/station, a project described as: The Station is an open-world multi-agent environment where AI agents pursue autonomous scientific discovery and build a shared literature.

TianGzlab/OmicsClaw

Instructions file CodexOpenCode

Instructions for TianGzlab/OmicsClaw, covering agents.md — omicsclaw guide for ai coding agents, repository working contract, project overview, setup and pip install -e .

jdforsythe/forge

Instructions file

Instructions for jdforsythe/forge, covering forge, tech stack, conventions and key principles.

NVIDIA/nvalchemi-toolkit

Instructions file

Instructions for NVIDIA/nvalchemi-toolkit, a project described as: ALCHEMI Toolkit is a developer toolkit for accelerating training and inference for AI in chemistry and material science.

dna-seq/just-dna-lite

Instructions file CodexOpenCode

AGENTS.md instructions for dna-seq/just-dna-lite, covering agent guidelines, repository layout (uv workspace), running the app, uv script entry point collisions and coding standards.

ls1intum/thesis-template-typst

Instructions file GitHub Copilot

Instructions for ls1intum/thesis-template-typst, covering thesis proposal review assistant instructions, key responsibilities, critical success factors, most important elements (prioritize these) and section-specific guidelines.

damionrashford/RivalSearchMCP

Instructions file CodexOpenCode

Instructions for damionrashford/RivalSearchMCP, covering agents.md, project overview, development commands, setup & running and install dependencies.

evo-design/proto-tools

Instructions file CodexOpenCode

Instructions for evo-design/proto-tools, a project described as: A universal infrastructure layer for generative biology.

evo-design/proto-tools

Instructions file Gemini CLI

Instructions for evo-design/proto-tools, a project described as: A universal infrastructure layer for generative biology.

genggng/hermes-arxiv-agent

Instructions file CodexOpenCode

AGENTS.md instructions for genggng/hermes-arxiv-agent, covering agents, project purpose, core data flow, deployment modes and 1. local mode.

celeritas-project/celeritas

Instructions file CodexOpenCode

AGENTS.md instructions for celeritas-project/celeritas, covering celeritas ai agent instructions, mandatory behaviors, before any modification — verify code state, after any user correction — update this file and after any completed task — commit.

fl-sean03/OpenSDL

Instructions file

Instructions for fl-sean03/OpenSDL, a project described as: A modular Python foundation for reproducible computational and autonomous laboratories. Alpha; the reference profile is simulator-only.

cyanheads/clinicaltrialsgov-mcp-server

Instructions file CodexOpenCode

Instructions for cyanheads/clinicaltrialsgov-mcp-server, covering agent protocol, mcp surface, tools (7), resources (1) and prompts (1).