System and method for converting a flat netlist into a hierarchical netlist are disclosed. The method includes receiving the flat netlist, traversing the flat netlist in a bottom-up fashion, and identifying isomorphic subcircuits in the flat netlist. The method further includes creating a set of cross-coupling capacitor collections for storing information of cross-coupling capacitors, creating a set of net collections for storing information of isomorphic subcircuits, traversing each hierarchical level of the hierarchical netlist in a top-down fashion, and generating the hierarchical netlist using the set of net collections and the set of cross-coupling capacitor collections.