3.6. Plan for Device Programming
You can define a configuration scheme on the Configuration tab of the Device and Pin Options dialog box. The Intel® Quartus® Prime software uses the settings for the configuration scheme, configuration device, and configuration device voltage to enable the appropriate dual purpose pins as regular I/O pins after you complete configuration. The Intel® Quartus® Prime software performs voltage compatibility checks of those pins during compilation of your design.
The technical documentation for each device family describes the available configuration options.