1. A biological interface system comprising: a sensor comprising a plurality of electrodes for detecting multicellular signals emanating from two or more living cells of a patient; a processing unit configured to receive the multicellular signals from the sensor and process the multicellular signals to produce a processed signal, the processing unit being configured to transmit the processed signal to a controlled device that is configured to receive the processed signal; a surrogate of the controlled device for use during an integrated patient training routine, the surrogate configured to be more complex than the controlled device, wherein the system is configured to perform the integrated patient training routine using the surrogate of the controlled device to generate one or more system configuration parameters that are used by the processing unit to produce the processed signal, wherein the system is configured such that the patient training routine is performed at least once during use of the system, wherein the system is configured to set a threshold value for determining the successful completion of the training routine, and wherein less than full control of the controlled device is available to the patient prior to successful completion of the patient training routine.