Yes, those two choices are independent of each other. Be certain that you entered your direct deposit information in your federal return, so that it will carry over into the Michigan return.
For your federal return, be sure to print a payment voucher, Form 1040-V and mail that voucher with your check, cashiers check, or money order to the IRS SERVICE CENTER serving your region. Please see addresses below:
https://www.irs.gov/pub/irs-pdf/f1040v.pdf