Once you've done the initial installation of your Replicator Agent you can configure which user the agent should run as.
You can set the user in which the agent runs by editing the bin/agent file and set the RUN_AS_USER= directive. This directive is commented out by default. In order to set it you remove the leading # and then enter the name of the user following the 'RUN_AS_USER' directive. For example, to configure the user 'perspectium' your entry would look like the following:
The user that you configure must be a valid user within the system running your replicator agent and it must have permission to read and write to the directories containing the replicator agent.