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title: Resources for reproducible research

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# Resources for reproducible research

## General

Credit to Brian for the following:

- Repo for a presentation I gave on documentation and sharing strategies, with some templates in rmarkdown/jupyter formats with accompanying conda environments: https://github.com/neurogenomics/document_and_share
- Slideshow on reproducibility in R by Dr. Seo-young Silvia Kim: https://sysilviakim.com/figs/rladies_dallas_reproducibility_20210125.pdf

Along similar lines:

- [The Turing Way](https://the-turing-way.netlify.app/welcome.html) is a great general resource for all things reproducibility.
- Jenny Bryan has a great slide deck on good file naming conventions [here](https://speakerdeck.com/jennybc/how-to-name-files)

## R package development 

Credit to Brian for the following:

- Our lab’s reproducible workflow suite for R package development called `rworkflows`: https://github.com/neurogenomics/rworkflows
- It can just used in conjunction with a CRAN/Bioc-compatible R package template, called `templateR`: https://github.com/neurogenomics/templateR

## Quarto/R Markdown

- For anyone who wants to make slide decks with R Markdown, here's a [xaringan](https://github.com/yihui/xaringan) DRI template: https://github.com/H-Mateus/dri.xaringan.theme
- And similarly for [Quarto](https://quarto.org/): https://github.com/H-Mateus/quarto-ukdri-theme