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Lightsheet Z.1
Left Tool Area and Hardware Control Tools
Carl Zeiss
02/2013
000000-1790-528
121
3.3.13.2
PALM – Remove PALM Outliers
The
Remove
PALM outliers
function allows
removing all molecules that within a defined radius
will have less than the specified numbers of
neighboring molecules.
Select the
Remove PALM outliers
tab to select the
Remove PALM outliers
processing tool (Fig. 178).
Activate the image you want to process in the
image container and press the
Select
button to load
the image. Then expand the
Method Parameters
tool window to have access to the filter functions
(Fig. 179).
You can set two parameters by using the sliders or
the spin input boxes:
Radius [nm]
. The radius defines the distance from a
localized position of a peak (molecule) in which all
peaks falling within that distance are counted.
Position threshold
. If the number of counted
neighboring peaks (molecules) falls short of the set
value, the respective peak (molecule) will be
removed from the list and the PALM image.
This tool will emphasize densely labeled
structures and can help remove floating
molecules and ghost signals.
This tool works only for PALM images.
After setting the thresholds, press
Apply
to create
the new image. A message will be displayed telling
how many molecules have been removed from the
input PALM image (Fig. 180).
Press
Ok
to have access to the newly computed
image (Fig. 181).
Fig. 178
Processing – Remove PALM outliers
tool selected
Fig. 179
Processing – PALM Remove PALM
outliers
Fig. 180
Processing – PALM Remove Outliers
message box
Fig. 181
PALM images before (left) and after
(left) removal of outliers; Radius set to
3000 and Position Threshold to 100.
Only those peaks / molecules in
denser structures remain.
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