> For the complete documentation index, see [llms.txt](https://help.connected.illumina.com/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool.md).

# Illumina StrataMap Image Tool

- [Overview](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/overview.md)
- [Installation](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/page.md)
- [Optical Target Test](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/optical-target-test.md)
- [Imaging the Illumina Optical Target](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/optical-target-test/imaging-the-illumina-optical-target.md)
- [Microscope Assessment](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/optical-target-test/microscope-assessment.md)
- [Imaging Assessment](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/tissue-target-test.md)
- [Configuration](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/tissue-target-test/configuration.md)
- [Load Images](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/tissue-target-test/load-images.md)
- [Image QC](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/tissue-target-test/image-qc.md)
- [Select Tissue](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/tissue-target-test/select-tissue.md)
- [Export Sample Files](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/tissue-target-test/export-sample-files.md)
- [Image Processing](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/image-processing.md): The image processing workflow is a guided six-step process for preparing tissue images for downstream spatial analysis. Each session processes one slide at a time from start to finish.
- [Homepage](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/image-processing/homepage.md): The homepage is displayed when the application is launched. This screen provides access to the main image processing workflow and initial setup options.
- [Load Images](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/image-processing/load-images.md): The Load images screen is the first step in the image processing workflow. This screen is used to enter slide identification information and select image files for processing.
- [Enter Pixel Size](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/image-processing/configuration.md): The Enter pixel size screen is the second step in the image processing workflow. This screen displays the pixel size for each loaded image file.
- [Define Samples](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/image-processing/define-samples.md): The Define samples screen is the third step in the image processing workflow. This screen is used to identify sample locations within each image and assign sample IDs.
- [Review Image QC](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/image-processing/review-image-qc.md): The Review image QC screen is the fourth step in the image processing workflow. It displays quality results and allows visual inspection of the images to determine whether to proceed or retake images.
- [Image QC](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/image-processing/image-qc.md)
- [Refine Tissue Masks](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/image-processing/refine-tissue-masks.md): The Refine tissue masks screen is the fifth step in the image processing workflow. This screen is used to review and edit the tissue mask. Only area in the mask selection will be included in analysis.
- [Select Tissue](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/image-processing/select-tissue.md)
- [Export Sample Files](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/image-processing/export-sample-files.md): The Export sample files screen is the final step in the image processing workflow. This screen is used to configure export destinations and save processed sample files for downstream analysis.
- [OME-TIFF](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/image-processing/export-sample-files/ome-tiff.md)
- [Samples for Slide CSV](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/image-processing/export-sample-files/samples-for-substrate-csv.md)
- [Analysis Methods](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/analysis-methods.md)
- [Uninstallation](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/uninstallation.md)
- [Troubleshooting](https://help.connected.illumina.com/dragen-stratamap/illumina-stratamap-image-tool/troubleshooting.md)


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