This is surely a well-studied problem, but I'm enjoying just playing with it for now. I have a bunch of 2D points (they are actually circles with possibly varying radii... later) and I'd like to devise a metric of sorts to quantify their arrangement. At first I was thinking K-means, but I don't know how many clusters there might be. So I began playing with AffinityPropagation (for my first time). The results weren't exactly what I was expecting, and I was wondering what parameters I should tweak to get different results? In the 2 sample datasets/outcomes at https://github.com/rheiland/PhysiCell_tools/tree/master/cell_metrics, I have what I call "uniform" and "clumpy". Can someone offer a general explanation of why they both have ~25 clusters? I'm probably making false assumptions about the AP alg. Thanks for any insights.
Next, I'll probably explore some image processing algs and graph algs. But I'd welcome other ideas. Randy
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