Measuring mulitple species from a single image

Posted by gaton on Jul 11, 2014; 7:51pm
URL: http://imagej.273.s1.nabble.com/Measuring-mulitple-species-from-a-single-image-tp5008690.html

Hello,
I'm trying to measure (area), categorise (as species) and count multiple individuals from a single image. E.g. image of a fouling community with multiple individuals of different species- I want to know how many species, how many individuals of each species, and area covered by each species or individual.
I'm using the Wand tool to select the individuals as ROIs- adding these to the ROI manager. I could then rename them as species, measure, export the results to excel and count from there. But I'm wondering if there is some way to automate the naming- e.g. have 10 species each assigned to a number key and when I press that key it renames the most recent ROI (I'll panic when I go over 10 species, but you get the gist). Or- using different colors to highlight the different species and then somehow recording the selection color as a column in the measurement results (again, export to excel & count colors from there).
I've also added ObjectJ which does most of the above, except I can't use the wand tool from within ObjectJ.


Does anyone have any suggestions of a work-around?

Thanks,
Gail