Calibration/Customization depends on the joystick. Windows has default basic calibration, but no customization. If it's a Logitech stick, the Logitech Gaming Software will allow you to calibrate and fully customize all keypresses. Most joysticks have something similar.
If software is not an option, you'll need to edit the controls.ini file in the Artemis directory to customize your button presses, note that Artemis only accepts 8 Joy buttons in this way (UI_INPUT_JOY_BUTT0-7). So gaming software allows remapping of keys beyond those 8 :)
And I second what Captain says, only my suggestion was be start on 4 if you have a crew, jump to 7 after 3-4 missions, keep it barren, then go very interesting when you lose (and it's pretty certain that you will, haha).
I have yet to play the missions that come with the game, though.