domains / families / science / spatial-transcriptomics-agent

spatial-transcriptomics-agent

separate

Runs STAgent to align histology images with expression matrices, perform clustering and SVG detection, and generate literature-backed spatial reports for spatial transcriptomics datasets.

When to use

• Analysis of Visium/Xenium or similar ST datasets.
• Visual reasoning over spatial plots, H&E images, or cluster maps.
• Automatically generating Scanpy/Squidpy code for new ST workflows.
• Hypothesis generation about spatial gene expression patterns.

When not to use

• Definitive cell-type labeling without supporting markers

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