I would like to do a neighborhood region based analysis in Cytomap. I would like to use the gating and cell classification that I do in FlowJo, so in the .csv file that I upload in Cytomap I have added a column called “Population”, in which I include this information for each cell/object.
Is it possible to use those previously determined cell populations to perform the subsequent analyses (i.e. defining neighborhoods)? When I try to do so, this information is lost and I cannot use the “Populations” column that I have on my files. Do I have to do the clustering in CytoMAP? or should I upload a separate .csv file for each of the populations I had previously determined? Should I name the column in a different way so that it is recognized as “cell types/phenotypes” by the software?
I hope my explanation was clear.
Thank you for your help!