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use geotiffread function to read Geotiff files with spatial references http://in.mathworks.com/help/map/ref/geotiffread.html you can assign a value (away from data range ex.-99999) instead to the NaN. Else, use interpolation techniques to fill the no data pixel.If you have time series data, you can use TIMESAT or SPIRIT software for filling no data pixels. ...

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