Operator for segmenting, tracking and analysing 2D image sequences of fluorescently labeled cells
input image
image (sequence) to be segmented
maximum area change
if the fraction of the areas of two regions from subsequent frames differ more than this value, these regions are not considered to belong to the same cell
maximum distance (pixels)
if the centroid distance of two regions from subsequent frames exceeds this value, these regions are not considered to belong to the same cell
only used if automatic gating distance determination is deactivated!
maximum number of iterations [advanced view]
maximum number of iterations for level set segmentation
median filter radius
radius (pixels) of median filter used for noise reduction
minimum area (pixels)
minimum area (number of pixels) of objects to be retained
objects with a smaller area will be discarded
minimum seed size
minimum size (number of pixels) of seed objects to be considered as cells
remove border touching objects
objects that are connected to the image borders will be discarded, if checked
determine gating distance automatically
should the gating distance be determined automatically
if not, the maximum distance (pixels) is used
gamma
gamma correction with a value smaller than 1 is used to emphasize faintly fluorescing cells / cell parts
if background noise is very high the value should be increased
pixel length, x-direction
physical length of a pixel in x-direction
pixel length, y-direction
physical length of a pixel in y-direction
unit x/y
unit of measurement for pixel size
time between frames
time elapsed between the acqusition of two consecutive frames
unit time
unit of measurement for the time
minimum track length
minimum length (number of consecutive frames) of a track to be considered for analysis
analyze intensities
should image intensities be analysized
requires an intensity image corresponding to the label image
analyze shapes
should cell shapes be analyzed
analyze trajectories
should cell trajectories be analyzed
show trajectory map
should a 2D map of the trajectories be created
Verbose
output some additional information