Yes, I have received the weekly payment, and from the banking section, it goes to A/R and then matches that amount to invoices simply.

1. Create Invoices  ( for the whole week, mostly 30 to 35 approx).

2. Send them to the customer.

3. Received the amount in the Bank (which is linked with QBO).

4. Go to invoices and click on received payment.

5. Select the invoices that are equal to the amount received from the customer.

6. Select the amount then click on save close or received.

But now the customer deducts $1000 as a loan installment from the weekly amount and pays the remaining amount through the bank.

I hope now you can understand my point of question.