We obtain analytic and numerical results for the non-perturbative amplitudes of topological string theory on arbitrary, compact Calabi-Yau manifolds. Our approach is based on the theory of resurgence and extends previous special results to the more general case. In particular, we obtain explicit trans-series solutions of the holomorphic anomaly equations. Our results predict the all orders, large genus asymptotics of the topological string free energies, which we test in detail against high genus perturbative series obtained recently in the compact case. We also provide additional evidence that the Stokes constants appearing in the resurgent structure are closely related to integer BPS invariants.