The paper titled, ”Active Documents with Org-mode”, gives a concise introduction to the way org-mode can be used for reproducible research. In one single document, Linux shell commands, Python code and R code are all used for analyzing base-ball statistics. Org-mode is used to produce one comprehensive documents that details all the various steps in the analysis.

The following visual from the paper gives an overview of the org-mode document :

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As one can see, the beauty of the org-mode is that, you can share data and variables across various languages and environments.