Intersections of the automorphism and the Ekedahl-Oort strata in $M_2$

We compute the intersections between the automorphism strata and the pullback by the Torelli map of the Ekedahl-Oort strata inside the moduli space of genus two curves. We first describe explicitly which possible automorphism groups a genus two curve can have over a field of positive characteristic, and parametrise the families of curves with a prescribed automorphism group. Then, we describe an algorithm to compute the strata of genus two curves whose Jacobian variety has a fixed Ekedahl-Oort type. Finally, we compute the dimension and number of irreducible components of the intersections between the strata.