From the deposit:

  • Go to your Transactions page and locate the deposit you'd like to apply to the invoice. (We suggest using the "Deposits Only" under Filter by Types so you have less transactions to sort through.)
  • Open the deposit to edit it, and click the "Split" button at the bottom of the screen. This will split a deposit in 2. (Click "Split" again to split it a 3rd time, and so forth.)
  • Type in the amount of the first split that you'd like to apply to an invoice.
  • Click "Apply this payment to an invoice" next to Regular Income
  • Select the invoice you'd like to apply it to. You'll notice the amount of the other split is calculated to be the remainder of the total deposit.
  • Save your changes!