Re: Mean Intensity values Mismatch

Posted by amoghj on Sep 23, 2015; 8:39pm
URL: http://imagej.273.s1.nabble.com/Mean-Intensity-values-Mismatch-tp5014419p5014430.html

Hi Wayne!

Thanks for your reply!
Here is a link to the dropbox folder:

https://www.dropbox.com/sh/cz8ve6ofkjry401/AAC0g01KpiDB7zWiB4Rq6NHUa?dl=0

It contains a sample stack .tif, the macro that I recorded, the output of Plot Z Profile, and the output results table of both the Analyze Particle command as well as the Plot Z Profile.

In summary:
I duplicated the stack, adjusted Threshold of the duplicate with the 'Mean' method of thresholding (coincidence!) and Set Measurements to redirect output to the original stack. I got the mean from the Analyze particles function.
Next I selected th duplicated stack and sent the overlays To ROI manager. Then I transferred the overlays to the original stack and used that to plot the Z Profile.

Is this the correct way to do things?

Any help appreciated!
Thanks a lot!