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Hey Guys,
I'm doing a lab rotation in a neuroscience lab focusing on synapses. My task is to take confocal images and analyse the synapses from each image for different parameters. I stained the pre and post synapse by targetting a specific protein in each. I managed to get the area, diameter, centroid coordinates of each channel separately by setting a threshold.
What makes a problem is that i need to calculate the mean distance between the centroid of each puncta in a channel to its partner in the other channel (excluding the punctas having no partner) ( no colocalization=no synpase). It wouldn't have to be the nearest neighbour! an overlap must exist between the channels.
what i have now are the coordinates of the centriods for punctas of each channel. Also, i thought about having the overlap image (by using the "And" function in image calculator) and then obtaining the centriod coordinates for it. then to check somehow which punctas have this centriod (overlap poistions ) and then relate them to each other.
I would be grateful if someone can help me find an automated way to calculate the mean distance between the centriods of each real partner punctas.
Thank you
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