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Fig. 2 Running the MATLAB script The script may be run either by clicking the "Run" arrow (red box) or by typing Auto_Count into the Command Window. The only parameters that need to be modified are the filenames and the threshold value (highlighted in yellow) in the Editor Window. Once finished, the number of detected cells will be stored in the "Count" variable (highlighted in red), which can be found in the Workspace (right-hand side of screen).
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