Can not set Threshold at 1

Posted by pang on Oct 21, 2014; 12:56pm
URL: http://imagej.273.s1.nabble.com/Can-not-set-Threshold-at-1-tp5010131.html

Dear ImageJ colleagues,

I have a 16-bit image with labeled cells.  Pixel values for cell 1 is 1, and pixel values for cell 2 is 2, and so on. The background pixel value is zero.  There are about 5000 cells in this image. When I tried to make a binary image to mask all cells using thresholding ( set threshold at 1). Surprisingly, the whole image becomes red (I set the threshold mode as RED), and I found that the minimum threshold I could use is 16.  I would like to use setThreshold( 1, 5000), but it does not seem to do in that way.

Is there any people could help me to explain why this happens, and how to set the threshold at 1? Should I use plugin to do it? I am currently using ImageJ 1.47 and I found FIJI has the same issue too.

Thanks!

Zhengyu

Zhengyu Pang, Ph.D.
Biochemistry and Bioanalytics Laboratory
Life Sciences and Molecular Diagnostics Technology Organization
Diagnostics, Imaging, and Biomedical Technologies
GE Global Research, K1-5B37A
One Research Circle
Niskayuna, NY 12309
T: 518-387-4015
F: 518-387-7765


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