| General |
Average cell diameter: The expectation value of the cell diameter |
12 μm |
| 2D segmentation |
maxz-range: Threshold on the range-filtered height view |
Calculated from the histogram of the range-filtered height view. |
|
rrange: Neighborhood radius for the range filter |
3 μm (one-fourth of the cell diameter) |
|
minMIP: threshold on the mean intensity value of the spheroids |
Mean of the background intensity of the MIP |
| 3D ellipsoid approximation |
minradius: The z-dimension of spheroids with radii below this threshold is put to the mean radius in the plane instead of determined from the 3D signal. |
24 μm |
| Attenuation |
Intensity attenuation percentage (threshold): The minimal percentage of the signal that has to be retained to be analyzable |
50% |
| Spot detection |
Maximal spot radius: Maximal expected spot radius, larger spots are split |
8 μm (average nucleus diameter) |
|
Average spot radius: Scale for the spot detection |
Optimal scale calculated from the LoG of the MIP |
