We describe an approach to quantum control of the quasiparticle excitations in a trapped Bose-Einstein condensate based on adiabatic and diabatic changes in the trap anisotropy. We describe our approach in the context of Landau-Zener transition at the avoided crossings in the quasiparticle excitation spectrum. We show that there can be population oscillation between different modes at the specific aspect ratios of the trapping potential at which the mode energies are almost degenerate. These effects may have implications in the expansion of an excited condensate as well as the dynamics of a moving condensate in an atomic wave guide with a varying width.