I’ve found this forum helpful in my attempts to quantify the number and size (diameter) of cells in my images of oyster gonad, however I’m about near the end of my rope and posting as a last ditch effort before doing a manual approach.
I’ve tried a number of different things (cellprofiler, ilastik, etc), but it seems to me the particlesizer plugin has the most promise and has gotten me closest to what I’m looking for. I’m attaching a picture before and after running particlesizer with ellipse fitting mode. As you can see, it does a decent job, but I don’t find it accurate enough yet. If only I could combine the “training” aspect of ilastik’s density counting with particlesizer’s ability to measure objects of different sizes…
Any suggestions or feedback are welcomed, and thanks to all of you who have helped others in the past and left good advice.