Scaling the intensities has the same effect on the visual representation as adjusting the min/max values of the color scale. The ratio signal to noise remains.
To normalize an image, create first an extracted ion image from the peak of interest and one from the reference. Divide the two, selecting an appropriate minimum for the divisor in order not to amplify noise.
Please check out the short video tutorials on the web for instructions on this process.
Markus
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