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ELYRA 7
Left Tool Area and Hardware Control Tools
ZEISS
03/2019 V_02
000000-2262-999
225
Lateral
(Fig. 392) is used to correct for linear lateral and
axial drifts, that is in all directions. Linear alignments are
performed in the x, y and z direction, when the
Applied
button is pressed. The respective offsets (coefficients) are
displayed in the coefficient table in the
X
,
Y
and
Z
columns, respectively (Fig. 393).
For
SIM
,
WF
and
SWF
images, the software will use
significant structures for performing the alignment. You
can set a ROI and then the structure within the ROI is
used. For
HR
(SMLM) images at least one fiducial is
expected. Without a fiducial, no alignment will be
performed in this case.
Affine
is used to correct for linear lateral (
X
,
Y
) and axial
(
Z
) drifts, rotational offsets in the image plane in x and y
(
RX
,
RY
) as well as a 1
st
order stretching in the image
plane in x and y (
SX
,
SY
). The respective offsets
(coefficients) are displayed in the
coefficient table
in
the corresponding columns (Fig. 394). The scrollbar can
be used to have access to all columns. For
SIM
,
WF
and
SWF
images, the software will use significant structures
for performing the alignment. You can set a ROI and
then the structure within the ROI is used. For
HR
(SMLM)
images at least three fiducials are expected. Without
fiducials, no alignment will be performed in this case.
Parabolic
is used to correct for linear lateral (
X
,
Y
) and
axial (
Z
) drifts as well as chromatic aberrations, where a
2
nd
order stretching in the image plane in x (
X1
,
X2
) and
y (
Y1
,
Y2
) is performed. The respective offsets
(coefficients) are displayed in the
coefficient table
in
the corresponding columns (Fig. 395). The scrollbar can
be used to have access to all columns.
Parabolic
only
works with
HR
(SMLM) images and is displayed only in
the
Alignment mode
drop down menu, when a
HR
(SMLM) image is selected as the
Input image
.
The calculated coefficients in the
coefficient table
can be edited by hand. The correction will be
exactly performed when pressing
Apply
according
to the coefficients in the
coefficient table
.
If the
Save
button is pressed, the
coefficient
table
(with the coefficients) will be saved in a .bin
file. These .bin file can be reloaded by pressing the
Load
button via the
Windows Explorer
. The
Load
button becomes only active when the
Fit
check box is not active.
Fig. 392
Alignment mode drop down
menu for selected SMLM image
Fig. 393
Correction table in the Lateral
alignment mode
Fig. 394
Coefficient table in the Affine
alignment mode
Fig. 395
Coefficient table in the Parabolic
alignment mode