AnyDVD HD by itself will rip the entire disc. You would need other software to rip pieces, yes. If it's a blu-ray disc look into tsremux and if it's an
HD DVD look at evodemux.
AnyDVD HD has to be running or you must have already ripped them to the hard drive to use those utilities. For more information on them, just do a google search and you'll find them.