There are 2 methods of deployment.
Deployment is carried out from within the Management Console.
Requirements for Remote Installation
If Remote Installation is not an option for you, or you have an existing automated software deployment mechanism, you can create a custom MSI installer from within the Management Console that, when run on the target Endpoint, will create a unique pairing between the Agent and the Management Service.
You can install the Endpoint Agent by running the custom installer using your standard deployment method, i.e.: scripting, Group Policy, or via Remote Desktop.