Colocalization calculation by JACoP in imageJ

Posted by gauri on Mar 12, 2011; 10:45pm
URL: http://imagej.273.s1.nabble.com/Colocalization-calculation-by-JACoP-in-imageJ-tp3685403.html

Hello all imaje j users and Thanks Dan
I had another question about analysis of colocalization using JACoP.
i make substack of 4-5 slices for both the channels. Do i just use those substack as such for colocalization or do i merge these 4-5 slices in one image before i use them in JACoP.
If i use 4-5 slices for each substack, how does JACoP calculate the r value? Does it look at r value of each slice and then average it, or does it average out the pixel. i am so confused about how it calculates.

Gauri