Platform R: Software Available

Platform R provides a standard Ubuntu 22 Linux environment. In addition to the scientific packages described below, it includes the following common tools:

Editors
- emacs
- nano
- vi(m)
- pico
Development Tools
- make
- cmake
- gcc, g++, gfortran
- git
- perl
Session Management
- tmux - see Platform R: TMUX (Terminal Multiplexer)
- screen

Conda

Miniconda is installed for all users. Once you have initialized an environment you can install packages from Bioconda, Conda-Forge, and PyPI.

Matlab

Matlab is available through a standardized Platform R Container. See Platform R: Running Matlab.

Spack

Spack, a package manager for scientific computing, is installed for all users. It provides access to more than 8,000 software packages. See Install Spack to get started with spack on Platform R.

R

R is available either through spack or by using a container. Once your R environment is ready, you can install packages from CRAN and Bioconductor.

Containers

Singularity (also known as Apptainer) is installed for all users on the compute nodes. From Platform R both Docker Hub and the Nvidia Container Registry are available. See Platform R: Using Containers in Slurm to get started.

Slurm

Slurm is the cluster management and job scheduling system used in Platform R. See Platform R: Slurm Introduction to get started.

Additional Software Requests

If there is software you need but which cannot be installed by spack, please contact us.