Specifying a predetermined ROI

Posted by Abdulhameed Bakreen on
URL: http://imagej.273.s1.nabble.com/Specifying-a-predetermined-ROI-tp5023001.html

Hi guys,

I'm a PhD student who is pretty new to ImageJ and I would really appreciate it if anyone could help me with this.

I'm trying to measure the staining intensity of histologically-stained microglia/macrophages in the penumbral tissue of stroke rats. Basically, I would like my ROI (the penumbral tissue) to be a predetermined 200 um-wide cortical tissue away from the border of the ischemic lesion. I'm having challenges doing this since the area selection tools available cannot precisely depict my irregular ROI. Also, though the freehand tool can be used to outline my irregular ROI, how do I make sure that it's 200 um away from the ischemic core border? Are there any available macros for this or is there any other way?

Your help would me highly appreciated.

Regards,

Abdulhameed Bakreen,
University of Eastern Finland

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