📚 [Documentation] - Using R

[edwardchalstrey1]

Section of Documentation

Software tools

Description of Improvement

• Add a guide for installing R, similar to the existing Python instructions
• Include Jupyter notebook with R instructions
• If there are any truly reproducible R notebooks, include setup instructions there - see these notes

Benefits of Improvement

Easier to use R and re-run analyses in R

Additional Context

No response

Definition of Done

• The documentation improvement has been developed on a branch.
• A pull request has been created for the new branch to be merged into the dev branch.

[edwardchalstrey1]

R

0. Install Jupyter (and obvs would need Python and pip)

       python -m pip install jupyter
   

1. Install R

       brew install --cask r
   

2. Open R in terminal and install the IRkernel:

       install.packages('IRkernel')
   

3. We need to make Jupyter see the newly installed R kernel by installing a kernelspec. To install system-wide, set user to False in the installspec command in your Rconsole:

       install.packages('IRkernel')
   

4. Open the notebook:

       jupyter notebook
   

5. Running the first cell installs all the packages into the base R as there's no venv created and the packages don't have specificed versions