Shadows, leaf morphology problem

Posted by Leaf Pollution on Dec 12, 2013; 7:29pm
URL: http://imagej.273.s1.nabble.com/Shadows-leaf-morphology-problem-tp5005891.html

Hi there,

I hope someone can help. I am carrying out my undergraduate dissertation on pollution on certain leaves. I have used an environmental scanning electron microscope to take photos of the particles at various magnifications. I want to count particles of certain size fractions (all below 10um) and hence use the threshold function to count particles. However, the morphology of the leaf is problematic. Ridges and dips are appearing as white/black and are hence being counted in particle analyzer. I am using a method similar to Ottele  et al. (2012) http://www.sciencedirect.com/science/article/pii/S0925857409001098 but my images are not as simple as these produced in the paper. Would anyone know what I need to try?

Thanks so much In advance!