Writing a rough draft of a scientific paper: expanding an outline until there's a paper (CC061)

Writing is a challenge. In this episode of Code Club, I show how I take a rough outline and expand upon the bullet points until sentences, paragraphs, and the rough draft of a manuscript emerge. Central to my process is using the "... and ... but ... therefore ... " model to writing narrative.

This episode is part of a larger arc of episodes investigating the sensitivity and specificity of amplicon sequence variants (ASVs), also known as exact sequence variants (ESVs). ASVs are growing in popularity for analyzing microbial communities using 16S rRNA gene sequences. Proponents think that they should supplant operational taxonomic units (OTUs). What do you think? Pat demonstrates these concepts by live coding at the command line interface using GitHub Flow, Make, and RStudio.

0:00 Introduction
1:12 and ... but ... therefore
7:11 Expanding the outline
21:18 Intros & Discussions
24:13 Outline to draft
28:52 Conclusion

[dhercar]

Probably the highest quality/views ratio I've ever seen.

[leezhou]

These are very useful videos.

I was trying to find where you demonstrated how to insert references into the manuscript in RMD. I could not find it in CC062, is it in a subsequent episode?

I will give it a try if inserting references and formatting the bibliography is not too difficult.

Thanks!

[janarigonato]

Super!! So precious and feasible tips! I wish I could had had this information years before! I am really enjoying your tutorials, thanks for that!

[mikhaeldito]

Came for the R stuffs, found golden advice on writing too :)

[iarasouza]

Nice!!! As a junior scientist, my biggest struggle is to write down my results, especially because English is not my native language. Please keep making these episodes!