A digital tuning system (250) for changing a cutoff frequency of an analog filter (132) includes digital synthesizers (292 and 294) for producing a two-tone calibration signal (196) applied to an input of the filter after a quality factor of the filter is increased. The filter includes at least one R/C circuit with two resistors (304 and 306) for changing the quality factor and arrays (308 and 310) of capacitors for changing the cutoff frequency. The amplitude of the magnitude responses (409 and 411) of the filter to each tone (405 and 407) is measured by a two discrete Fourier transform single-frequency bin power detection circuits (253 and 254) while the filter is sequenced through a plurality of capacitance settings. An optimal capacitance for the R/C circuit is selected by comparing, to a pre-selected value, a difference between the responses of the filter to each tone, for each capacitance setting.