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Hello there, @dalia-feliciano.
You'll just have to create a bank deposit and enter the amount deducted with the negative value. This is to match the deposit with the actual amount received.
To receive a payment from the invoice:
Now to record bank deposit:
You can always visit our page to learn more on how to mange your income and expenses in QuickBooks Online.
As always, if you have other questions, don't hesitate to leave a comment below. I'll be always here to help you. Have a great day and more power in your business!