not sure how often/if this would happen...but probably could do something that would union bed files for a certain type and use for various functions (variant calling metrics, etc).
this can fall under "collapse all the bed files, all the time"...which would happen in the submitter for these pipelines to generate the scatter gather.
not sure how often/if this would happen...but probably could do something that would union bed files for a certain type and use for various functions (variant calling metrics, etc).