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MAN-10152-01 for software v2.5
Select ROIs & Segment
3. For each Segment Definition box
Figure
33), choose the Segment Name
(to be used across all applicable ROIs).
Do not use special characters like ' \ / * : <
> | " '.? in the ROI or segment names and
do not begin/end with a space. This
segment name will transfer as a tag in the
Data Analysis stage. See the
Data Analysis User Manual
10154).
4. Channel designations : For each segment definition box, choose whether each
fluorescence channel (FITC, Cy3, Texas Red, Cy5) should be included (+), excluded (-), or
∅
ignored (
) as part of the segment rule's definition
Change the segment color used to illustrate the segment area on the scan, if desired. A
l
default color will be present; click on the color box to choose a different one.
Delete a segment, if desired.
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5. Segment generation order: Use the grip bar to drag and drop segment definition boxes
to establish the order in which you would like segments generated. This order will also dictate
the order in which segments are collected, unless that order is changed in the Advanced
Parameters (see below).
Generation order should be set in the order of increasing overlap. This means that more
l
specific segments should be generated first (placed at the top of the list) and less
specific segments last (placed at the bottom of the list).
The segment generated with the channel that is positive for DNA (usually FITC+), if used,
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should be generated last.
Areas included in an earlier segment will be removed/unavailable for later segments.
l
FOR RESEARCH USE ONLY. Not for use in diagnostic procedures.
(see
GeoMx DSP
MAN-
(see Figure
GeoMx DSP Instrument User Manual
Figure 33: Segment definitions
33).
47
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