Rstudio¶

Rstudio is an IDE for R a language used for statistical programming and data science. The bundle also includes R with some often used packages preinstalled. The following versions are installed:

Software	Version
Rstudio	2024.09.1+394
R	4.4.2
BiocVersion	1.30.25
dbplyr	2.5.0
devtools	2.4.5
doParallel	1.0.17
dplyr	1.1.4
ggplot2	3.5.1
reshape2	1.4.4
tidyverse	2.0.0

Usage example¶

Rstudio can be run by loading the module and running the rstudio command:

1 2	`module load rstudio rstudio`

Similarly R and Rscript can be run directly.

The rstudio_shell command can be used for low-level access to the shell.

1	`rstudio_shell`

R scripts can be submitted to the cluster using the submit command. The first step is to create and enable the projectrc. This step needs to be done only once. In the project directory, run the following commands:

echo rstudio >> .modules
ern project enable

The command below submits a job, to the cluster, requests 16 threads and 64gb of RAM, and runs an R script.

submit --profile=vnc --name=Example --threads=16 --memory=64gb --input="*.csv" \
--input="example.R" --command=Rscript -- example.R

Performance notes¶

No performance notes available

Recommended resources per session¶

No recommended resources available

Benchmarks¶

No benchmarks available.

Community guides and tutorials¶

No community guides available.

Official site and documentation¶

Licensing information¶

Rstudio is licensed under the GNU Affero General Public License v3.

Primary citation¶

External guides and resources¶

If you know of a guide/tutorial that you have found useful, please help us share it by contacting the HPC staff at hpc@ufs.ac.za