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HealthyR Notebooks course on RStudio Cloud:

  1. Go to https://rstudio.cloud/spaces/20603/join?access_code=loFjFYH4SU4q9uQX5Ymqkd6reLjK9vlbkXAMyeFX

  2. Create an account or Log in with Google or GitHub

  3. Click on “Join Space”

  4. Click on “Projects” at the top

  5. Click on “New Project” and wait while “Deploying project” completes

Alternatively, install on your computer (to work offline):

1. R

Download and install the latest version of R from:

https://www.stats.bris.ac.uk/R/

Windows: Download R for Windows - base - Download R 3.6.0 for Windows

Mac: Download R for (Mac) OS X - R-3.6.0.pkg

2. RStudio

Then download and install RStudio:

https://www.rstudio.com/products/rstudio/download/#download

Windows: RStudio 1.2.1335 - Windows 7+

Mac: RStudio 1.2.1335 - Mac OS X 10.12+ (64-bit)

3. R packages

3.1 Open RStudio and copy-paste the lines below into the Console and press Enter:


healthyr_notebooks = c("tidyverse", "boot", "finalfit", "flexdashboard", "gapminder", "here", "kableExtra", "knitr", "remotes", "rmarkdown", "shiny", "survminer", "tinytex")
install.packages(healthyr_notebooks)

3.2 Then Restart R

3.3 to then run these two lines (same as before, copy-paste to the Console):


remotes::install_github("thomasp85/patchwork")
tinytex::install_tinytex()

If it asks you "Do you want to restart your R session", press Yes the first time. If it immediately asks again, press No.

Code to check tinyTex and Tex working as expected:


tinytex:::is_tinytex()

#  If installed should return `TRUE`.
# Notice the triple colon, this is because it's an internal variable name.

Troubleshooting 3.3

  1. ~"can't find remotes": try doing step 3.2 (restart) again. We only just installed remotes:: in 3.1 so RStudio needs a restart before we can start using it.

  2. ~"TeX failed, you already have a TeX distribution...". If you already have LaTex installed on your computer, the tinytex::install_tinytex() one is not necessary and might not work. This is fine, there is no harm in copy-pasting in anyway if you are not sure.

4. Download course materials

  1. Click on Clone or download then Download ZIP (top-right of this GitHub page)
  2. Unzip the folder and rename it to just healthyr (so from healthyr_notebooks_materials-master to healthyr).
  3. Move this folder to where you will be keeping your R projects. Each RStudio project is in a separate folder, but you can always move them afterwards (e.g. into a new folder called R-projects).
  4. Open RStudio. Click on New Project.
  5. Select "Existing Directory".
  6. Browse to find your healthyr folder, then Create Project.
  7. Click on the 01_introduction folder in the Files pane (bottom-right), then open 01_introduction.Rmd.