Bedtools
Collectively, the bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks.
Interactive usage
After connecting to Stanage (see Establishing a SSH connection), start an interactive session with the following command:
srun --pty bash -i
The latest version of bedtools (currently version 2.31.0) is made available with the command:
module load BEDTools/2.31.0-GCC-12.3.0
After this any of the bedtools commands can be run from the prompt.
Installation notes
Bed tools was installed using EasyBuild/4.9.4, build details can be found in $EBROOTBEDTOOLS/easybuild with the module loaded.