How to Write Reproducible Manuscripts
summary
Practical guidance for creating reproducible manuscripts, theses and reports using R-based tools: how to share data and code, use R Markdown for dynamic documents (including bibliography, tables and figures), and manage workflows with a master script or tools like makefile, drake or targets. Covers dependency management with checkpoint/automagic/renv or Docker, plus project-organization tools such as rrtools and workflowr to build standardized research compendia.
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chapters (11)
- 0:00Introduction
- 1:10Reproducible manuscript
- 3:38Basic reproducibility with data and code
- 8:15Reproducible code tools
- 9:59From RMarkdown to dynamic manuscript
- 13:29Advanced RMarkdown benefits
- 16:40Complex project organization
- 18:05Package dependency control
- 19:27Virtual containers for reproducibility
- 21:13Standard project structure
- 22:57Summary and conclusions
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