Intensity quantification area

Posted by Rbalada on Oct 31, 2013; 10:40am
URL: http://imagej.273.s1.nabble.com/Intensity-quantification-area-tp5005401.html

Hello everybody,

I'm a first year PhD student from Barcelona and I'm having some doubts
using ImageJ. If anybody could help answering my questions I'd be really
grateful. Thanks a lot and enjoy your research.

So, I'm trying to quantify the intensity of an Immuno Histo Quemistry from rat hippocampus and I'd like to measure it using always the same rectangle, with the same exact area, so then I can compare the different intensities regarded in each picture from each condition. That's my first doubt, how do I get sure of using always the same rectangle?

Second question: how can I correlate each intensity point within a rectangle with the exact point of the picture? (the coordenates). For what I've been told, ImageJ homogenizes the different intensity points within a rectangle, so you can not know something like 'at the coordenate x= 0,5 and y= 1,3 the intensity is...whatever. So, is that like this or there is an option to see each intensity value within a rectangle? If so, how could I do this? Any idea of how could I know this intensity values using some other program if ImageJ does always homogenize the intensity within a rectangle? Maybe the homogenized intensity within a rectangle may work for comparing between conditions, but not between different points within the same rectangle of the same condition.

Thanks again and please, if my way of explaining my situation with ImageJ is not clear but you think you may be able to help me if I explained it better, don't doubt asking me to explain it again, I'll be really grateful to you.

Thanks a lot,




Rafel