Stuff

Content in the main body. Next comes the foo directive.

–opt1 I am the help for the –opt1 option
–opt2 I am the help for the –opt2 option

Commands:

BED-file

–sub-opt1 I am the help for the –sub-opt1 option
–sub-opt2 I am the help for the –sub-opt2 option

BAR

BAR content