This is likely a beginner's question, but I failed to find an answer to it here.
I would like to calculate the F measure to compare cell populations derived via different gating approaches (e.g. manual vs automated; or manually gated by two different people), similar to what was done in the FlowCAP challenge (https://www.nature.com/articles/nmeth.2365).
Maybe there is an easy solution, but my initial idea was to create intersections between the flowFrames of a manually and automated gated specific cell population in order to determine my true positive and false negative subsets - this should be all I need to calculate the F measure as i already know the rest. I could not find out how to achieve this easily, i.e. create an intersection of two flowFrames in one step. Do I have to create a filter list to which I add all gate filters of the gating tree leading to my automatically gated population of interest (e.g. root->debris->singlets->lympho->cd3) and then apply this filter list to the manually gated population (e.g. cd3) to get the intersecting subset?
Any help with this is appreciated.