Select cells from features and save only selected features


#1

Here is a very important question:

Let’s suppose I want to filter and select cells that have certain brightness in two different channels. These two features are not one within another. I want to get the cells that are containing these 2 features and collect all the possible statistics about the shape of the 2 features inside each cell and the “relate” indicating which one is the cell that “owns” these features. I read the documentation and I could not find a perfect way of doing that.

I already have objects for Feature_1 and for Feature_2. I also have the objects that are Cells. Now, I want to filter and only save Cells that contain Feature_1 and Feature_2 inside and collect the statistics of this feature shapes (but only the ones that belong to cells with both of them). Finally, I will “relate” them in order to know which cell corresponds to which features.

Thank you for your help.

Joaquin.


#2

Hi Joaquin,

This relates to the question you asked about filtering objects that only have another object present. Again, I think this is something that is easily addressed in post-processing of your data. If you really want to have CellProfiler throw away these objects, I would probably filter your Cells by max intensity in both Feature_1 and Feature_2 images. So you would have original Cells, then filter by Feature_1 max intensity and have Cells_1, then filter Cells_1 by Feature_2 max intensity.

Hope this helps,
Mike