Results Folder

When analysis completes, the DRAGEN StrataMap analysis software generates a results folder at the specified location. To view analysis output, navigate to the analysis output folder and select the files that you want to view.

The results folder contains all the information that should be passed to ICM for downstream analysis per sample.

Folder Contents:

• Run summary report, HTML with run diagnostics (see Run Diagnostics)

Per sample:

• A file for ICM import named {SampleID}_ICM.tar.gz (see Data for ICM)
• Cell contours, CSV (see Cell and Nuclei Contours CSVs)
• Nuclei contours, CSV (see Cell and Nuclei Contours CSVs)
• Image file, OME-TIFF (see OME-TIFF)
• Raw or per-spatial-barcode data in MTX format (see MTX Files)
• Cell-binned data in MTX format (see MTX Files)
• 10 µm grid-binned data in MTX format (see MTX Files)

Optional additional files, based on user input configurations:

• Additional grid-binned MTX files (see MTX Files)
• Nuclei-binned data in MTX format (see MTX Files)

Notes:

See Global and Local Coordinates for information about how to align transcript data with OME-TIFFs or contours, since they are in different coordinate systems.

See Third party tools for guidance on analyzing results with popular third-party tools like Scanpy and Seurat.