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Currently if you are doing a negative transaction within an income transaction eg Sales less expenses as the net figure is what has been banked the expenses are currently coming off the sales report instead of going to the purchases
When recording transactions in MYOB Essentials, the type of transaction determines where it will appear on the GST Report. For example, a Receive Money/Sale(Take Payment) transaction will result in a value in GST collected (Sales and Income), whereas a Spend Money/Bill (Pay Bill) transaction will result in a value in the GST Paid (Purchase and Expenses) section. Having a negative line on that transaction will reduce the value of that Tax value i.e. a negative on a Sale will reduce the Sales value.
For more information please see my post on Receive money including expenses paid