The harmony is able to handle equipment that DOESN"T have discrete codes because it remembers the state of non-discrete power and input selections. This is probably the biggest benefit to a Harmony along with the one button activity model. It's also a learning remote. Chances are the discrete codes for your Yamaha are already in the harmony database. If not, you can easily learn them from the yamaha remote or your pronto. Worst case you can send support your pronto hex codes and they'll add them to your account.

With the harmony remotes you don't do macros to turn equipment on and off and select inputs. You tell it how each device handles power and input selection and how long it takes to power up, select an input, etc. Then you setup an activity that includes the components you need (tv, receiver, dvd player for watching a DVD) and which input is used (if applicable). Then you select that activity and the harmony dynamically figures out what it needs to turn on (or off) and automatically selects the right inputs. It uses the power on delays to figure out what to start first (to minimize overall startup time). If you have a specific requirement (for HDMI handshake e.g.) support can fix the starting order for you.