The Atoms UI is the tool used for setting up your scene environment. From here you can build new Animation clips, Agent types, Simulation events, Behaviour modules and State machines.
Your scene must be initialized before you can use the Atoms UI.
You can open the Atoms UI using the shelf button or via the Atoms Menu: Atoms > Atoms UI
By right clicking on an item on the list a menu will pop up. You will be able to perform some actions from there, like duplication.