Skip to main content

Ctrl+K

Preface

Prerequisites
Setup

Reproducibility Principles and Practices

1. Principles of Reproducibility
2. Primary Practices
3. Secondary Practices
4. Case-by-case Practices
5. Appendix: References

Introduction to the Command Line

6. Interacting with Computers
7. Command Line Basics
8. Navigating File Systems
9. Editing Files
10. Appendix: References

Installing Software with Pixi

11. Environment Managers
12. Pixi Basics
13. Unit A: Configuring the Shell
14. Unit B: UC Davis HPC Modules
15. Unit C: Python Packages
16. Unit D: Tasks

Introduction to Version Control

17. Version Control Systems
18. Git Basics
19. Remote Repositories
20. The Git Workflow

Git for Teams

21. Branches & Merges
22. Working with GitHub
23. Making Git Comfortable

Repository
Open issue

.md

Appendix: References

10. Appendix: References#

“What Is Unix, and Why Does It Matter?”
DataLab Install Guide
Shell, Wikipedia entry
Teleprinter, Wikipedia entry
README, Write Me! Digital Project Organization and Documentation
Unix Cheat Sheet
Vim Wiki
Vim Cheat Sheet

previous

9. Editing Files

next

11. Environment Managers

By Nick Ulle, Carl Stahmer, Tyler Shoemaker, and Wesley Brooks