Depends how your exhaust is put together. Is it clamped or welded? You will probably have to cut the old muffs out anyway because the clamps will have the pipe smashed.
The flowmasters may be shorter so you may have to add pipe. You would have to get a center in/out muffler of the same pipe size.
If your pipes are old and nasty just get a whole new system. You save yourself alot of time in the long run.