Based on many years spent on various dynos (Superflow engine and a couple different chassis dynos), I'll address some questions you didn't ask. Hopefully this will help you and others understand the benefits of using dynos.
I've been told the difference (loss) in dyno numbers between an engine dyno (flywheel numbers) and a chassis dyno (wheel numbers) is about 16-18%. The real answer depends on the individual dynos involved and the car. I doesn't really matter if it's FWD or RWD.
The term "best" depends on your goal. If it's presenting the best possibly numbers for resale, then you should go with an engine dyno. Even then, different brands and setups will yield different results. It will matter when it was last calibrated as well.
If your goal is to use the dyno as a tool to improve performance, then "best" doesn't matter as much as consistency and repeatability. This requires data acquisition on the dyno, and I believe the same dyno should be used each time, or you will have no chance of really knowing what change produced what result. If you are trying to find out optimum timing, or which exhaust has the least loss, or even what spark plugs to use, you need a dyno that can repeat within 1-2 horsepower. That means making a change, then putting the car back the way it was, and getting the same numbers you had previous to the change. Without that ability you will never really know what will work best in your car. Also don't just look at the top horsepower number, look at the power curve, and take into consideration the track(s) you run to determine what's best. Sometimes you will find a different setup is required.
Final advice, arrive with a plan and with parts to try. Then establish a baseline (engine and oil fully warmed up, numbers repeatable). Don't just show up, make one or two pulls, and see what you've got unless your goal is to have a printout for resale value.