Pittsburgh Supercomputing Center 

Advancing the state-of-the-art in high-performance computing,
communications and data analytics.



Bedops is an open-source command-line toolkit that performs highly efficient and scalable Boolean and other set operations, statistical calculations, archiving, conversion and other management of genomic data of arbitrary scale. Tasks can be easily split by chromosome for distributing whole-genome analyses across a computational cluster.





module help bedops

gives a list of the available bedops commands. Once the bedops module is loaded, typing a command name gives usage information for that command.

To run bedops, include a command like this in your job script:

module load bedops