Workshop Setup
Requirements
This workshop will be hands-on, so attendees are strongly encouraged to bring and use your own computer. This will ensure that when you leave the workshop you have a proper setup of tools on your own computer for an efficient workflow going forward.Location
We will be in 527 Buller on both days. The workshop on Wednesday will run from 9:30 - 16:30, with a one hour break for lunch. On Thursday we will meet from 9:30-15:00 with a 45 minute break for lunch. The Microbiology Departmental seminar will start at 15:30.Setup Instructions
R and RStudio require separate installations. R is the underlying statistical computing environment. RStudio is a graphical integrated development environment (IDE). You can think of R as the engine, and RStudio as the car. You need to install R before you install RStudio.Windows
If you don’t have R and RStudio installed
- Download R from the CRAN website
- Run the
.exe file that was just downloaded
- Go to the RStudio Development Page
- Under Installers select **RStudio x.yy.zz - Windows Vista/7/8/10) (where x, y, and z represent versison numbers)
- Double click the file to install it
- Once it’s installed, open RStudio to make sure it works and you don’t get any error messagess.
If you already have R and RStudio installed
- Open RStudio, and click on “Help” > “Check for updates”. If a new version is available, quit RStudio, and download the latest version for RStudio.
- To check which version of R you are using, start RStudio and the first thing that appears in the console indicates the version of R you are running. Alternatively, you can type
sessionInfo(), which will also display which version of R you are running. Go on the CRAN website eand check whether a more recent version is available. If so, please download and install it. You can check here for more information on how to remove old versions from your system if you wish to do so.
If you don’t have R and RStudio installed
- Download R from the CRAN website
- Run the
.exe file that was just downloaded
- Go to the RStudio Development Page
- Under Installers select **RStudio x.yy.zz - Windows Vista/7/8/10) (where x, y, and z represent versison numbers)
- Double click the file to install it
- Once it’s installed, open RStudio to make sure it works and you don’t get any error messagess.
.exe file that was just downloadedIf you already have R and RStudio installed
- Open RStudio, and click on “Help” > “Check for updates”. If a new version is available, quit RStudio, and download the latest version for RStudio.
- To check which version of R you are using, start RStudio and the first thing that appears in the console indicates the version of R you are running. Alternatively, you can type
sessionInfo(), which will also display which version of R you are running. Go on the CRAN website eand check whether a more recent version is available. If so, please download and install it. You can check here for more information on how to remove old versions from your system if you wish to do so.
sessionInfo(), which will also display which version of R you are running. Go on the CRAN website eand check whether a more recent version is available. If so, please download and install it. You can check here for more information on how to remove old versions from your system if you wish to do so.macOS
If you don’t have R and RStudio installed
- Download R from the CRAN website.
- Select the
.pkg file for the latest R version
- Double click on the downloaded file to install R
- It is also a good idea to install XQuartz, which is needed by some packages
- Go to the RStudio download page
- Under Installers select RStudio x.yy.zzz - Mac OS X 10.6+ (64-bit) (where x, y, and z represent version numbers)
- Double click the file to install RStudio
- Once it’s installed, open RStudio to make sure it works and you don’t get any error messages.
If you already have R and RStudio installed
- Open RStudio, and click on “Help” > “Check for updates”. If a new version is available, quit RStudio, and download the latest version for RStudio.
- To check the version of R you are using, start RStudio and the first thing that appears on the terminal indicates the version of R you are running. Alternatively, you can type
sessionInfo(), which will also display which version of R you are running. Go on the CRAN website and check whether a more recent version is available. If so, please download and install it.
If you don’t have R and RStudio installed
- Download R from the CRAN website.
- Select the
.pkg file for the latest R version
- Double click on the downloaded file to install R
- It is also a good idea to install XQuartz, which is needed by some packages
- Go to the RStudio download page
- Under Installers select RStudio x.yy.zzz - Mac OS X 10.6+ (64-bit) (where x, y, and z represent version numbers)
- Double click the file to install RStudio
- Once it’s installed, open RStudio to make sure it works and you don’t get any error messages.
.pkg file for the latest R versionIf you already have R and RStudio installed
- Open RStudio, and click on “Help” > “Check for updates”. If a new version is available, quit RStudio, and download the latest version for RStudio.
- To check the version of R you are using, start RStudio and the first thing that appears on the terminal indicates the version of R you are running. Alternatively, you can type
sessionInfo(), which will also display which version of R you are running. Go on the CRAN website and check whether a more recent version is available. If so, please download and install it.
sessionInfo(), which will also display which version of R you are running. Go on the CRAN website and check whether a more recent version is available. If so, please download and install it.Linux
- Follow the instructions for your distribution from CRAN, they provide information to get the most recent version of R for common distributions. For most distributions, you could use your package manager (e.g., for Debian/Ubuntu run
sudo apt-get install r-base, and for Fedora sudo yum install R), but we don’t recommend this approach as the versions provided by this are usually out of date. In any case, make sure you have at least R 3.3.1.
- Go to the RStudio download page
- Under Installers select the version that matches your distribution, and install it with your preferred method (e.g., with Debian/Ubuntu
sudo dpkg -i rstudio-x.yy.zzz-amd64.deb at the terminal).
- Once it’s installed, open RStudio to make sure it works and you don’t get any error messages.
sudo apt-get install r-base, and for Fedora sudo yum install R), but we don’t recommend this approach as the versions provided by this are usually out of date. In any case, make sure you have at least R 3.3.1.sudo dpkg -i rstudio-x.yy.zzz-amd64.deb at the terminal).