I use squidpy to analyse Chip cytometry data. I have some issues with understanding the average clustering coefficient…
After running sq.gr.centrality_scores() and plotting the centrality scores via sq.pl.centrality_scores() one also gets an overview of the average clustering (please view the graphs at the very end of this tutorial: Analyze Imaging Mass Cytometry data — Squidpy main documentation).
I now have some problems understanding the average clustering graph. It seems to me that populations that form more uniform clusters get a lower average clustering value… If someone could briefly explain the average clustering coefficient and how it is interpreted I would be really happy.
Thanks a lot!