I am currently doing analysis of whole scanned tissue labelled with three different fluorescence markers (conjugated to alexa 488, alexa 546 and alexa 647) in addition to DAPI, where I have done cell segmentation (cell detection) and classification of the cells (object classification + creating composite classifier).
In the next step of the analysis, I want to do a “clustering analysis” of neighbouring cells, to check where my cells of interests are located compared to the other cells.
Do any of you know if this is possible in QuPath Version: 0.2.3?
I guess there is a way to create a script for this or is there a commando that I can’t find? Sadly, I am not an expert in scripting as my background is based with molecular biology/immunology/pathology.