Percentage of cells within scatter plot gate


I have been using cell-profiler to quantify the expression of two markers, and using cell-profiler analyst create scatter plots presenting their expression. Is there a way to create a gate that displays the percentage of cells found within it (resembling a FACS plot).


Hi Roy,

Hmm, not that I know of. We can add this to our list of requests, though we don’t have support to actively update CPA at this time, so I don’t know if/when this might happen.

As a hacky workaround, you could create a gate, then Right-click in the scatterplot -> “Create gated table…” -> Check the box with “Show gates column”. Save the table however you like and calculate sum(GatesName column) / (# rows).