Devices and methods are described that provide improved diagnosis from the processing of physiological data. The methods include use of transforms prior to submitting the data to a multiple level neural network. In one embodiment for ECG analysis, a template is used to subtract data that is not pertinent to the diagnosis and then a Fourier transform is applied to the time series data. Examples are shown with applications to electrocardiogram data, but the methods taught are applicable to many types of physiological data.