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Scatter plot data different resolution satellite images

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I have two satellite images with different resolution and I would like to do a scatter plot comparing each pixel for the same latitude and longitude. I have both images in netcdf format, which is correspondent latitude, longitude and band information (in this case Reflectance at 859 nm). Any ideas on how I could do this in matlab? I have inserted an image showing what I want to obtain (Vanhellemont & Ruddick 2015).

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