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README.qmd
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---
format: gfm
---
```{r reqs, include = FALSE}
# Specifying requirements for renv
box::use(
mime,
markdown,
rmarkdown,
yaml,
downlit,
xml2,
stringi,
stringr
)
```
<!-- DO NOT EDIT THIS FILE! Edit README.qmd instead! -->
# SISMID `Introduction to R` Materials (2024)
This is the GitHub hosting the code and resources for the SISMID 2024 Intro
to R Module.
## About This Course
### Module Summary
This module introduces the R statistical environment, assuming no prior
knowledge. It provides a foundation for the use of R for computation in later
modules. In addition to discussing basic data management tasks in R, such as
reading in data and producing summaries through R scripts, we will also
introduce R’s graphics functions, its powerful package system, and simple
methods of looping.
Hands-on use of R is a major component of this module; users require a laptop
and will use it in all sessions. Examples and exercises will use data drawn from
biological and medical applications, including infectious diseases and genetics.
Participants require a laptop and will use it in all sessions. Suggested
pairing: All later modules.
### Prerequisites
This module assumes prior knowledge of basic descriptive statistics and regression modeling consistent with an introductory statistical course.
Before starting the course, students should install the newest version of
R ([here](https://cran.r-project.org/)) and RStudio
([here](https://posit.co/download/rstudio-desktop/)).
### Module Content
* Write and use R script.
* Create and use R projects and R Markdown files.
* Read and write data files
* Install and load R packages, and be able to access the help system and other
resources to facilitate their use.
* Learn base R syntax
* Perform basic data manipulations (e.g. working with different data types,
creating new variables, merging data sets).
* Use R to perform descriptive statistics including graphics.
* Perform basic inferential statistical analyses including regression analysis.
* Write and use R functions, and perform basic programming in R including loops.
## Repository file structure:
* `README.qmd`: controls what shows up here on the GitHub page.
* `index.qmd`: this is the website homepage.
* `schedule.qmd`: info on the course schedule and logistics
* `references.qmd`: any references for the course go in the .bib file and
get rendered on this page.
* `data` directory: contains datasets used in the course and exercises
* `exercises`: contains R or Rmd files for each of the exercises
* `format`: contains code to format the website appearance
* `images`: put static image files here
* `modules`: all of the modules go here. Each module gets its own folder with
an `index.qmd` page that holds the web page content and a separate document
for the slides.
* Everything else is housekeeping files needed for the website.
## Built With
- [Quarto](https://quarto.org)
## Contact
The instructors for this course are
[Amy Winter](https://publichealth.uga.edu/faculty-member/amy-k-winter/)
and
[Zane Billings](https://wzbillings.com/).
## Contributing
If you see any issues, please open an Issue or Discussion on the book's GitHub
page. Or, if you know Git, you can open a Pull Request to fix the issue
directly, which is even better!
## Acknowledgements
* Thanks to [Callum Arnold](https://callumarnold.com/) for publishing [the source code for a 2023 SISMID module](https://github.com/arnold-c/SISMID-Module-02_2023/tree/main) which was the basis for this website!
## License
<a rel="license" href="http://creativecommons.org/licenses/by-nc/4.0/"><img alt="Creative Commons License" style="border-width:0" src="https://i.creativecommons.org/l/by-nc/4.0/88x31.png" /></a><br />This work is licensed under a <a rel="license" href="http://creativecommons.org/licenses/by-nc/4.0/">Creative Commons Attribution-NonCommercial 4.0 International License</a>.