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GeoMx DSP Instrument User Manual
Overlays, ROI Transfer, Export Images
Export Images
IMPORTANT:
Do not attempt to export images when collection is in progress. The instrument
must be in an idle software state before exporting images.
1. Select the Export menu in the Scan
Workspace.
2. The default view is Rendered Scan
Image
(see Figure
a full-color publication-quality image.
Choose Raw Channel Images to
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export single-channel, high-resolution
images as .tiff files. These may be
several GB in size. If size exceeds
ImageJ limit, try IrfanView graphic
viewer.
Choose ROI Report for a zipped file
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with a separate image of every ROI
and every segment within that ROI, as
well as an HTML summary of those
images.
Choose OME-Tiff to export as a .tiff file
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containing embedded OME-XML
metadata.
3. Use the View, ROIs, and Overlays fields to indicate what to export on the scan.
Rendered Scan Image allows you to choose Full Scan, which exports the entire scan
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image, or On Screen View, which allows you to manually zoom in and frame the export
field as desired.
4. Choose the Format in which you'd like the image exported (JPG, PNG, TIFF).
The JPG format allows you to adjust the file compression in the % quality field.
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The full exported image will not be zoomed and will reflect the Rendered Scan Image.
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5. Enter the File Name you'd like to use for the image.
6. Select Export.
FOR RESEARCH USE ONLY. Not for use in diagnostic procedures.
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43); choose this for
MAN-10152-01 for software v2.5
Figure 43: Export image menu - rendered scan
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