Yes, you can still have your refund directly deposited into your bank account if you paper file your tax return . Just be certain to double check your entries for any errors to avoid delaying your refund.
Please see the following IRS link for more information:
https://www.irs.gov/Individuals/Get-your-refund-faster-Tell-IRS-to-Direct-Deposit-your-Refund-to-One-Two-or-Three-Accounts