In 2017 Aguiar and Ardila provided a generic way to construct polynomial invariants of combinatorial objects using the notions of Hopf monoids and characters of Hopf monoids. They show that it is possible to find a combinatorial interpretation of these polynomials over negative integers using the antipode and give a cancellation-free grouping-free formula for the antipode on generalized permutahedra. In this work, we give a combinatorial interpretation of these polynomials over both positive integers and negative integers for the Hopf monoids of generalized permutahedra and hypergraphs and for every character on these two Hopf monoids. In the case of hypergraphs, we present two different proofs for the interpretation on negative integers. We then deduce similar results on other combinatorial objects including graphs, simplicial complexes and building sets.