04_reporting.qmd

---
title: "An introduction to Quarto"
subtitle: "Literate programming for transparent research reporting"
author:  Janick Weberpals
date: "`r Sys.Date()`"
date-format: long
engine: knitr
# bibliography: references.bib
# csl: epidemiology.csl
editor: visual
---

## Slide deck

<iframe src="https://janickweberpals.github.io/quarto_icpe_2024/index.html" frameborder="0" width="725" height="440.6641" allowfullscreen="true" mozallowfullscreen="true" webkitallowfullscreen="true">

</iframe>

## Example study report created using Quarto

-   [`https://drugepi.gitlab-pages.partners.org/hdmi-manuscript/`{=html}](https://drugepi.gitlab-pages.partners.org/hdmi-manuscript/)

## Setting up Quarto with SAS and STATA

-   Setup with [SAS](https://sassoftware.github.io/saspy/configuration.html#http) ([setup](https://www.harveyl888.com/outputs/quarto_02.html), [demo](https://www.harveyl888.com/outputs/quarto_02.html)) and [STATA](https://users.ssc.wisc.edu/~hemken/Stataworkshops/Statamarkdown/stata-and-r-markdown.html)

    <iframe width="725" height="440.6641" src="https://www.youtube.com/embed/A2-Ti-c6w8c?si=iUK56qZdMkVbfl-2" title="YouTube video player" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture; web-share" referrerpolicy="strict-origin-when-cross-origin" allowfullscreen>

    </iframe>

-   Achieving a seamless workflow between R, Python and SAS from within RStudio

    <iframe width="725" height="440.6641" src="https://www.youtube.com/embed/iS9toBHswBY?si=VjVGwy-lZ2ZVGGsa" title="YouTube video player" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture; web-share" referrerpolicy="strict-origin-when-cross-origin" allowfullscreen>

    </iframe>

-   SAS engine via Quarto

    <iframe width="725" height="440.6641" src="https://www.youtube.com/embed/4c9T6-__vI8?si=HyYdxcP2Q-vlio3M" title="YouTube video player" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture; web-share" referrerpolicy="strict-origin-when-cross-origin" allowfullscreen>

    </iframe>

## Quarto for reproducible medical manuscripts 

-   Talk by Mine Çetinkaya-Rundel on Quarto's new `manuscript` document type and how it can be used to create reproducible medical manuscripts (talk delivered at R/Medicine conference 2024)

    <iframe width="725" height="440.6641" src="https://www.youtube.com/embed/NK1onTLcgY4?si=e0dWnrCsi_a6Fl1-" title="YouTube video player" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture; web-share" referrerpolicy="strict-origin-when-cross-origin" allowfullscreen>

</iframe>

-   The slide deck and more information can be found at <https://quarto.org/docs/blog/posts/2024-04-01-manuscripts-rmedicine/>