This document will guide you through the steps involved in deploying Lotus Notes to multiple computers using Desktop Central's Software Deployment.
You can also customize the Lotus Notes application by creating a transform file that can be used for deploying the application using Desktop Central. For example, if you have created a trasform file named custom.mst, you can specify the installation command as \\servername\sharename\setup /s /v"TRANSFORMS=mu.mst /qn"
Both the transform file and the executable file should be stored in the same location.
For details on creating a transform file, refer to here.