As mentioned, you cannot schedule these things in Command Central itself. But the comparison can be run from the command line or via a REST API call, and the output can be structured as plain text, XML or JSON, so you could easily schedule it to run using an OS scheduler, or from an IS and then process the results programmatically and/or send an email.
Details of the CLI/REST API are in the Command Central help documentation.
#Integration-Server-and-ESB#webMethods#webMethods-General#Command-Central