Thanks for getting back to us, @orders17.

You'll have to mark the invoice paid so it will remove and will not show up in the banking page. 

Here's how: 

1. Open the Customer's invoice.
2. Click the Receive Payments button.
3. Choose the drop-down arrow below More.
4. Select the Add New Payment Method button
5. Enter the name of the Payment Method.
6. Pick its Payment Type.
7. Click Ok.

See this article for more detailed steps: Record an invoice payment.

Also, you can assign and categorize the downloaded transactions from your financial institution. For more information check out this article: Assign, categorize, edit, and add your downloaded banking transactions. It also provides additional information in managing transactions.

Please let me know if you need further help, I'm just here to lend a hand . Take good care.