It was hiding a bit in the docs but at the end i have found a way (180 degree rotation on y-axis):
var myQuaternion = Quat(Vector3(0, 1, 0.0), deg2rad(180))
var cell_item_orientation = Basis(myQuaternion).get_orthogonal_index())
set_cell_item ( int x, int y, int z, int item, cell_item_orientation )
Code snippet… maybe this helps others. IMHO it should be pointed out in the docs