So you are asking “how to use Manager to perform” rent collection and disbursement accounting tasks.
Generally, tenants pay their rent on an obligation basis, that is they are not invoiced for the rent.
Rent received should be deposited into a “Trust” bank account, not your business bank account, as the rent received are being held “on trust” for the landlord. In fact, I would setup the Trust as a separate Manager business from the agency Business
The individual properties can be accounted for separately by using the Special Accounts tab.
Any direct expenses (repairs) are paid from the Trust bank account via the Special Accounts.
Payments to the landlord, which will be the month end balance of the property account less any commission, will be via a Recipient Created Invoice, that is, you create the landlords invoice on their behalf.
The commission deducted from the landlord’s payment is allocated to a liability account within the Trust business, and then separately paid to the Agency business.
All other considerations, such as taxes etc, are handled as per standard local practices.