Automatic thresholding of each image in a time series and z-stack based on image intensity properties and accounting for bleaching.
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I have a series of images of cells taken in time series and z-stacks. I'm trying to threshold for the cell unfortunately there is bleaching and i cant use the same value through the whole series. I tried using linspace to generate threshold values based on the first and last images which i found by trial and error. However the cell seems to be bleaching in some kind of exponential and the linspace obviously does not account for that. I have also tried using stdfilt and medianfilt2 to reduce the noise, but this doesnt seem to help either.
Is there anyway that i can generate threshold values for the cell based on the intensity? the link above is among the most bleached of images I cannot use mat2gray because its also a z-stack and i only want those images that are actually in focus.
thanks for your help!
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Image Analyst
2012-1-6
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60 is not that many. Why not just do it interactively with my thresholding app? http://www.mathworks.com/matlabcentral/fileexchange/?term=authorid%3A31862
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