pyXenium.multimodal Tutorials#
The multimodal tutorials show complementary ways to combine Xenium molecular data with additional modalities.
Load the renal FFPE RNA + protein bundle, annotate joint cell states, quantify RNA/protein discordance, and summarize immune-resistance niches.
Use contour-level H&E patches together with Xenium RNA to score boundary-ecology programs, match controls, and rank biological hypotheses.
Run the breast contour H&E morphology increment pilot on PDC, inspect the BM-Net-style feature schema, and compare H&E morphology against Xenium-native cell and nucleus morphology.
Use HistoSeg structures as H&E tiling regions, run optional LazySlide PLIP/CONCH features on A100, and aggregate image signatures by structure for RNA/image interpretation.
The notebook tutorials use checked artifact bundles for fast Read the Docs rendering, with optional rerun cells for local Xenium exports. The BM-Net/PDC page documents the completed smoke run and the commands for scaling to real pathology backends. The HistoSeg + LazySlide page documents the A100 runner and the result schema for full breast WTA image-feature snapshots.