Button1: Open the “Cell Counter” (Kurt De Vos) for manual counting.
Button2: Run the “Count
Nuclei Watershed” application.
Adds the objects it found on
the current image to the roi-manager.
Button3: Run the “Count
Nuclei Watershed Batch” application.
Lets the user select
the input images, counts the nuclei per image in batch mode and
writes results into a spreadsheet file.
Button4: Run the “Count
Nuclei Watershed Interactive” application.
Works like the
previous application, but lets the user control and eventually
correct the nuclei found for each image.
A right click on one of the buttons 2-4 opens the options dialog for the application.
Volker Baecker
The applications 2-4 will find and count objects in images, using a watershed algorithm to separate touching objects.
Radius
of smoothing filter: The radius of the kernel of a
smoothing filter that is applied before the watershed. It needs to be
big enough to make disappear internal structures of the objects you
want to count, since otherwise objects will be split too much. It
should not be bigger than necessary since otherwise the contours of
the objects become imprecise and touching objects may not be
split.
Min. size of nucleus: Objects smaller than
the min. size will not be taken into account.
Max size of
nucleus: Objects bigger than the max. size will not be
taken into account.