I identify nucs, use them as a seed for the secondary object. so far so good. The goal is to count the number of secondary objects (using very stringent (1.6) conditions).
I have 2 issues:
- A large swathe of each overall image (brain slices) is not wanted. However, there is no way to crop it out during acquisition. I tied manual Crop in CP, but it only gives me geometric shapes. I lose too much of the wanted area. Also, using coordinates is impossible because each slice is a bit diff.
So I tried manual select object after secondary object, but there are hundreds of cells, to click on - not realistic to work this way,
- Unfortunately, during acquisition of the 30 slides, the student (I did not catch this in time), tiled sometimes 4 sometimes up to 8 tiles. So counting is now a problem. Any ideas how to normalize? (Maybe measure overall image size and do some calculation from there?)
(Defined as new user on this newish forum, though I been here since 2010, so can’t upload my pipeline)