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Project description
TMA Dearraying for Spatial Transcriptomics
STile helps segment tissue microarray (TMA) cores from single-cell spatial transcriptomics data and prepare platform-specific outputs for downstream analysis.
What it does
- Detects tissue cores by clustering cell centroids with HDBSCAN and refining core labels for Vizgen, Xenium, and CosMx outputs.
Main entry points
stile identify_tissue_cores: Load a.h5ad, cluster cells, assign cores, and save core plots.
Quickstart
# Build AnnData and centroid CSV from a platform run directory
stile run
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