Methods and systems are disclosed for rate matching in a stimulating medical device, such as a cochlear implant or an auditory brain stimulator. In embodiments, the stimulating medical device applies a fast Fourier transform (FFT) at an analysis rate to the received signal to obtain a plurality frequency bin output signals. The stimulating medical device then applies a rate matching through interpolation function to the frequency bin output signals to match the stimulation rate for the stimulating medical device. This rate matching through interpolation function may apply a common interpolation filter to each frequency bin output to obtain a plurality of outputs distributed in time across the time period between executions of the FFT. The values of the frequency bin output signals at the time most closely matching the time for which stimulation is to be applied may then be selected and used in applying the stimulation.