I’ve got two problem for which, though very simple, I cannot find any help.
1- I’ve got a stack of Z-slices of DAPI stained nuclei and would like to find the best focused one, then work with that slice. MeasureImageQuality works well for that, but then the only way I’ve found to select that slice and work with it is:
- Run a first project using MeasureImageQuality and save the scores for all slices into a database (SQLite in my case).
- Run a SQLite query to retrieve metadata for best focused slice into a CSV file.
- Use that CSV in a second project to load the best focused slice.
Is there any way these three steps, which I have to load and execute sequentially, can be put into a single project?
2- With the best focused slice identified in the process above, I construct a mask which I want to use over the whole stack of slices for another channel. Could you tell me if there’s a way in which I can match all slices in, say GFP, to one slice in DAPI (from which, later in the project, I generate a mask common to all slices)?
Thanks very much for any help