Table 1. Parameters.

Constant	Value		Definition
Parameters depending on cell morphology
rs	0.5	µm	Radius of the disk used for the morphological fill in. Set to the length scale of a neurite; rounded to a radius of 6.5 pixel corresponding to a diameter of 13 pixel.
rc	2.5	µm	Approximate lower bound of the cell radius, rounded to 32 pixel.
ta	50	pixel	Minimum number of pixels per segment (set to approximately one half of the area of the morphological fill in element, i.e. ).
Parameters set automatically by calibration data set
tr	112	a.u.	Threshold above which the local range difference of a pixel is counted for the outlier detection in a 12bit image.
te	0.0833	a.u.	Threshold for the strong edge detection of the Canny edge detector.
		a.u.	Threshold for the weak edge detection of the Canny edge detector.
Parameters used in default setting of MATLAB
l m	3	pixel	Side length of the square used as local neighborhood for the median filtering.
l r	3	pixel	Side length of the square used as local neighborhood for the range filtering.

Parameters used for image feature extraction.