I am quite new on Fiji and i am trying to quantify aggregates in my cells. i have an image on which i have set an automatic threshold as seen on the image 1 here. using create selection and make it inverse to be able to surround the perimeter of the different cells (image 1). however i dont know how to save each cell as a separate ROI as after i want to quantify aggregates respectively in each cell see image 2.
can anyone help me with this please!
by the way if any of you think that is not the right method to quantify the aggregates i am very willing to have some feedbacks.
Thanks a lot in advance,