@iggy2 you can't configure any control in this version, maybe in a future one.
Now, your problem seems very odd, did you try using any other emulator to see how the joystick behave ? especially one using a standalone core like dreamcast or psp ?
Because from what I see these could be one of these :
your joystick connections are rotated, but in that case if up is left, left should be down you have shot circuit issues in your joystickIt would also help if you could give the references of your joystick encoder