Operator for analyzing the movement pattern of cells as well as changes in morphology and fluorescence intensity
label image
image sequence where each cell region has a unique label
intensity image
image sequence containing the cell intensities
only needed if intensities should be analyzed
mask image [advanced view]
image sequence containing additional fluorescence intensities that are used to exclude certain cells
only needed if cells showing or lacking this fluorescence should be discarded from the analysis
include mask [advanced view]
if activated, only those tracks that have corresponding signals in mask image are included in the analysis (otherwise only these tracks are excluded)
average factor [advanced view]
only cells with average intensity above / below average factor times average intensity of the whole frame are excluded/ included(depending on whether include bright objects from mask is activated or not)
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 trajectories
should cell trajectories be analyzed
analyze shapes
should cell shapes be analyzed
analyze intensities
should image intensities be analysized
requires an intensity image corresponding to the label image
show trajectory map
should a 2D map of the trajectories be created
show overlay image
should a new image sequence with cells and inpainted trajectories be created
requires the intensity image
Verbose
output some additional information