I am very new to this program and was having some problems fine tuning the speckle pipeline. I have CD34 cells stained with gH2AX antibody and DAPI and i need to count the foci in each cell. I used the speckle pipeline from the website and when i run it, it seems to be giving me an inaccurate number of foci compared to when i count manually and sometimes the windows are blue.
Can someone please help me- I posted the pipeline below
09_13_2012pipeline2.cp (11 KB)