Centrifuges have been designed in the past for centrifuging multi-welled containers, but they are limited in centripetal acceleration or have a large footprint. The invention provides a centrifuge with a high centripetal acceleration and imbalance tolerance while maintaining a small footprint and being able to integrate with laboratory automation equipment. Methods and apparatuses for centrifugation include a rotor assembly positioned within a shield assembly suspended in a centrifuge. The rotor assembly is operably connected to the motor for rotating payloads (e.g., multi-welled containers) around an axis. The shield assembly is positioned such that the center of mass is aligned with the axis of rotation of the rotor assembly and the plane containing the rotational imbalance force vector. This alignment allows rotation of the container with an acceleration of at least 2000 g (or at least 3000 g, 4000 g, 5000 g, etc.).