Here is an image showing you how to connect a joystick to a 32bit alexmos board
As you can see the outputs from the joystick will go to the A1,A2,A3 inputs on the alexmos board. You would plug the VRX,VRY outputs from the thumb joystick to one of the A1, A2 inputs. Once connected then you will need to specify what input is for what axis in the alexmos. I have attached some profile files for our eagle eye gimbal that should help you get started.
32bit-5D-joystick-profile.zip (2.7 KB)