Open the MCU pin setup tool page, and select the module you would like to create your project for.
With the help of the peripheral list on the side, setup the pin layout for the project.
By changing to code view you can check also the generated code. Download the whole code with the button on the top.
Create a new project in your favourite IDE, add the generated code to it, and include the "mps.h" in your main file.
Call the MPS initialization function, it will automatically set up the peripherals for you. After this, you can still make manual changes in run-time if you like.
Using the layout view of the MCU pin setup tool as a guide, do the hardware setup.
Compile the code and flash it. Enjoy your project!