BEDTools

BEDTools: a powerful toolset for genome arithmetic. The BEDTools utilities allow one to address common genomics tasks such as finding feature overlaps and computing coverage. The utilities are largely based on four widely-used file formats: BED, GFF/GTF, VCF, and SAM/BAM.

Note

This is an autogenerated page, more detail including examples may be available for this package. Please see the first section of Software on Stanage

After connecting to Stanage (see Establishing a SSH connection), start an interactive session with the following command:

srun --pty bash -i

A version of BEDTools can then be made available with one of the following:

module load BEDTools/2.31.0-GCC-12.3.0

Notes

BEDTools was installed using Easybuild, build details can be found in $EBROOTBEDTOOLS/easybuild with a given module loaded.

Dependencies for latest version of BEDTools