How can I get the correct output using the Auto threshold imagej Plugin?

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Alaa 2016-2-28

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https://ww2.mathworks.cn/matlabcentral/answers/270454-how-can-i-get-the-correct-output-using-the-auto-threshold-imagej-plugin

评论： Walter Roberson 2016-2-29

Hi every one, I have tried the following code, where I read an image from a directory and use ImageJ Auto Threshold plugin to segment my image. Any one can do that easily using imagej program as follow:

   1- Open an image.
   2- Then Go to : image->Adjust->Auto Threshold.
   3- From methods drop list: Select the mean method.
   4- Pick the white object on the black background.

My problem is I can't call this plugin correctly from Matlab. My Matlab code as follows:

    javaaddpath 'C:\Program Files\MATLAB\R2013b\java\mij.jar'
    javaaddpath 'C:\Program Files\MATLAB\R2013b\java\ij.jar'
    MIJ.start
    MIJ.run('Open...', 'path=[E:\\sun\\Endothelium Project\\Endothelium Code\\MIJ Code\\ENDOTHELIAL IMAGES\\12.bmp]');
    MIJ.run('Threshold...','setAutoThreshold=mean');
    MIJ.run('setOption=BlackBackground');
    MIJ.run('Convert to Mask');    
    SegmentedImage = (VorImage);
    figure, imshow(SegmentedImage);