A system for separating a sample and collecting the separated sample. The system includes an ultracentrifuge having a cylindrical rotor. The system includes a gradient delivery assembly for delivering a gradient solution to the ultracentrifuge rotor, and a sample delivery assembly for delivering the solution containing the sample to the ultracentrifuge rotor. The system includes a fraction collection assembly for collecting discrete volumes of the separated sample. The system includes a processor for controlling operation of the ultracentrifuge, as well as the gradient delivery assembly, the sample delivery assembly, and/or the fraction collection assembly.