WCHD R Workshop
Dr. Marisa Eisenberg & Julie (Jules) Gilbert
12/1/2023
Workshop information
Welcome! On November 15, 2023, this workshop provided an introduction to the basics of R. All of the material from that workshop is still here!
The next workshop is scheduled for December 4, 2023, and will cover Quarto, a system in RStudio that creates reports, presentations, and more using a combination of R code and markdown syntax.
The URL for this website is: https://epimath.org/wchd-R-workshop/
For today, please download this zip file.
Note: You may need to update RStudio to version 2023.09.1. In RStudio, go to “Help” then “Check for Updates”.
Instructors: Marisa Eisenberg and Julie (Jules) Gilbert (University of Michigan, Ann Arbor)
Overview of topics
Below is an overview of the topics we’ll cover.
We’ve given estimated times for each topic below, but note they may be somewhat approximate! We may adjust as needed based on how comfortable everyone is working with R.
0. Pre-workshop set up
You should have received an email already with this info! But if for some reason you haven’t already installed the R, RStudio, and the packages we’ll be using today, here are the instructions and the installation check code that you can run to make sure you’re all set!
0.1 Datasets we will use
Before we start, please download this zip file of all the datasets we will use for this workshop. Put it in whatever folder/directory you plan to put all your workshop code in and then unzip it. You should have a folder called “datasets” with a bunch of csv and excel data inside!
1. Basic use of R, loading packages
12-12:10pm (10 minutes)
Covers: basic use of R, RStudio (the environment, console, etc.), loading packages (basically making sure everyone is set up and ready to go!)
2. Dataframes, loading data, and basic data operations
12:10-12:30pm (20 minutes)
- We’ll work through this live, building the code from scratch! But the finished code that we will build (with commented notes) is here:
Covers: dataframes, loading csv and excel data, basic operations with dataframes
3. Tidyverse and dplyr: the pipe
operator!
12:30-12:50pm (20 minutes)
10 Minute Break for Questions, Water, etc.
Workshop 2: Quarto/Rmarkdown
7. Additional topics (if time!), topics for next time
- Automating tasks
- APIs and pulling data from CDC with RSocrata
- Geocoding data
- More fun with ggplot
- More advanced coding
- Analysis (Correlations, cross correlations, linear models)
- Shiny Apps
- Census data or NHANES datasets
R Resources
The Epi R Handbook! - Really great resource for R with a public health focus. Includes advice for transitioning to R, code for common analyses, and more
Intro to R coursera class
Stat545 Intro to R website
All the [R package cheatsheets](https://github.com/rstudio/cheatsheets/blob/main/data-visualization.pdf! A super handy resource
Rmarkdown: quick tour, longer intro, Rmarkdown complete guide