Use Quarto for manuscript?

[annakrystalli]

And here's something that noone asked for but I'll throw out anyways! 😜

I'm really excited by Quarto and I think this manuscript would be a nice opportunity for you to explore it too!

There's a bunch of great features inspired by bookdown but included much more seamlessly that make scientific authoring and publishing much easier. See for example the following odcs on:

• Front Matter

• Title Blocks

• Citations & Footnotes

• Cross-References

• Creating Citeable Articles

• Appendices

• Reproducible Manuscripts with Quarto. Using the framework we can also apply a bunch of journal specific templates to meet submission requirements. Here's a list of available journal template extensions: https://quarto.org/docs/extensions/listing-journals.html

Example of manuscript in quarto

Here's an example of the manuscript I put together quickly: https://htmlpreview.github.io/?https://github.com/Infectious-Disease-Modeling-Hubs/hubEnsembles/blob/sm-ak/manuscript/hubEnsembles_manuscript-quarto.html

and here's the source: https://github.com/Infectious-Disease-Modeling-Hubs/hubEnsembles/blob/sm-ak/manuscript/hubEnsembles_manuscript-quarto.html

Visual editor

Another nice feature is that it includes a visual editor that renders a lot of the markdown, making it a nicer experience to develop:

Let me know if this is at all of interest and I can help migrate to a quarto doc if you like.

[lshandross]

@annakrystalli quarto sounds like it could be useful. But before switching over for this paper (since we're almost done), a few questions come to mind:

• Will the quarto styling options end up making our lives easier when formatting for a journal submission?
• Is there an easy way to go from rmd to qmd syntax?
• Are there any other pros/cons that you are aware of?