I’ve been trying to create a pipeline to measure the mean cell surface area of melanocytes (see example picture). But since there is much variety in the cell phenotype, I have not succeeded. After the module MeasureAreaOccupied, I try to use the module IdentifyPrimAutomatic to identify the cells. However, if I set the diameter range to fit the range of all cells, larger cells are not recognized as one cell, but are rather identified as several smaller cells. I wonder how I could deal with this problem?
I also tried the FindEdge module, which draws a nice, thin, but somewhat broken line around the cells. I don’t know in which module I can further process this image. There is unfortunately no module like ‘filling the lines’, which can fill the area surrounded by line, and to use that to identify cells.
For another cell line, COS cells, I want to identify the percentage of small cells . How can I let Cellprofiler calculate the ratio between number identified small cells and total number of cells? In the Module CalculateRatio I could only calculate the ratio between measurements such as area, but not number of cells.
So to make this long story a bit shorter, I hope someone could help me creating a pipeline which can identify all the cells and to calculate the ratio of cell amount. Thanks!