Hi I’m using CellProfiler 2 and am trying to analyze some data. The data looks at the amount of mCherry positive events within a cell and the number of FITC positive events within the mCherry positive area. The pipeline we have is fine it does the job and gives us an output we are satisfied with when we look at it when we have a small data set.
The output, does result in three separate .csv files. I would like a one file output and one that aligns the data from each MCH and FITC even to their parents. Our lab inherited a python script that does part of the work but it only sums the MCH and FITC data for each cell, it does not provide us with a table that shows the individual values. I’m a novice with Python as it is so I am struggling to get it work the way I want.
Is there a way I can change the output so that it does what I am asking?