Basic Operation
Applying a window to the YT waveform changes the waveform so that the start and stop values  
are close to each other, which reduces the discontinuities.
The Math FFT function has three FFT Window options. There is a trade-off between frequency 
resolution and amplitude accuracy for each type of window. You shall determine which one to 
choose according to the object you want to measure and the source signal characteristics.
Window Measurement Characteristics
Hanning Periodic Waveform Better frequency, poorer amplitude accuracy than Flattop
Flattop Periodic Waveform Better amplitude, poorer frequency accuracy than Hanning
Rectangular Pulse or  Transient  Special-purpose window applicable to discontinuous 
DSO5000 Series Digital Storage Oscilloscope User Manual                                            27