Research Engineering OS

Compress rework into standards + templates + checklists

Author: Li Hongmin (李鸿敏) The University of Tokyo, Computational Biology and Medical Sciences

About This Book

This is not a book that teaches you “how to write code,” but a book that teaches you how to manage research code.

Target readers:

• AI/ML researchers
• Computational biology researchers
• AI for Science

Core ideas:

• Experiments are the unit (not code files)
• Exploration can be messy, but outputs must be cleanable
• Conclusions can be temporarily fragile, but the chain of evidence must be solid

Read Online

This book is fully open source and can be read online for free. If you find it helpful, you’re welcome to:

• ⭐ Star it on GitHub
• 📖 Buy a paperback/Kindle edition to keep
• 💬 Share feedback and suggestions

Version Information

• Online version: continuously updated, includes the latest content
• Print edition: v1.0, first published in February 2026

Start Reading

Start from the Preface, or jump directly to:

• Why It Always Blows Up at the End - understand the root cause
• Experiments Are the Unit - core concept
• Repository Structure - practical guide

Contact

• Email: lihongmin@edu.k.u-tokyo.ac.jp
• Website: li-hongmin.github.io

© 2026 Li Hongmin. All rights reserved.