Hi Saar,
In the Threshold window, *don't* click Apply. Then the original pixel
values will be retained.
You also have to check "Limit to Threshold" in Analyze > Set
Measurements.
Another way to do it, where you don't have to keep the threshold
window open, is to set the threshold values, then Edit > Selection >
Create Selection and all the pixels within the threshold will become
an ROI.
To measure thresholded pixels within another ROI, add your other ROI
and the "create selection" ROI to the ROI Manager. Then select both
and More >> AND them.
Hope this helps.
Theresa
On Sep 15, 2010, at 10:03 AM, Saar Oz wrote:
> When I use the threshold command and set a lower and upper levels,
> the image
> turns to a binary image, and in the measure results the min and max
> values
> do not represent the thresholds I set (although I set it in the
> measurement
> options).
> In earlier versions of ImageJ it used to work differently...
> Did I missed something? An update?
> Mainly, what I want to do is(and used to do) very simple - threshold
> an
> image or an ROI within an image and then measure only the remaining
> pixels
> (min, max, intden, stdv, mean etc.)
------------------------------------
Theresa C. Swayne, Ph.D.
Manager, Confocal and Specialized Microscopy Shared Resource
Herbert Irving Comprehensive Cancer Center, Columbia University
1130 Saint Nicholas Ave, 222A
New York, NY 10032
212-851-4613
[hidden email]
http://hiccc.columbia.edu/?page=research/sharedresources/confocal
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