During this training, we used the cytofkit package with the following Graphical User Interface.
You can simplify the selecion of markers by using a text file of the markers to analyze. Just type this file name into the marker selection field.
Then it’s possible to continue the analysis with cytofast. Here is the html resulting from the data exported from cytofkit (or cytosplore). You need to define sample groups in a meta.csv file. Then you get nice heatmaps, compute t-test of percentages and Volcano plots.
