Re: Measuring mulitple species from a single image

Posted by gaton on Jul 15, 2014; 12:44pm
URL: http://imagej.273.s1.nabble.com/Measuring-mulitple-species-from-a-single-image-tp5008690p5008739.html

Hi Oli,
Thanks for the offer of help.
Hopefully I can describe that I don't think an automatic segmentation using colour/size/shape would work. For example, 2 species of spirorbid (an encrusting worm that builds white calcareous tubes) are essentially white spirals on the surface. The only way to tell them apart is to note whether they spiral clockwise or anticlockwise. A third species may have ribs or ridges along the dorsal surface. And a fourth white roundish spot may just be a particle of detritus/something that drifted into the photo.
I could use colour segmentation to highlight all white spots, but at that point it's probably just as easy for me to scan the image by eye- also picking up all red spots that are actual organisms while skipping all red spots that are just urchin tube feet that they've left behind... counting the number of zooids in a particular colony, etc.

I'll have a look at Norbert's suggestion below & let you know if successful.
Thanks,
Gail