This tutorial is available in the directory DE0\DE0_user_manual on the DE0 System CD-ROM. I found a way to manually bit bang the configuration file into the FPGA using Python and an FT232RL breakout board. Under tool -> programmer, set your programming hardware to usb-blaster.
The steps are explained assuming the reader is familiar with Altera FPGA development. Altera fpga programming tutorial Who should use the Altera Monitor Program The Altera Monitor Program is intended to be used in an educational environment by professors and students.