You can run it either way - let the heater do its thing, and set the apex to turn it off if it screws up, or let the apex turn it on and off, and use the heater thermostat as a backup.
Some considerations:
1. Some people say cycling the heater on/off by using the apex as the primary control is bad for the heater... I'm not super convinced.
2. Using the apex as the primary control gives you a finer control of the exact on/off temps, which can give your tank a more stable temperature.
3. If you use the apex as the primary control and rely on the heater's thermostat as the backup, you probably want to periodically check the heater to make sure the thermostat is still working.