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Recipes

Three end-to-end walkthroughs for the datasets people actually bring to BIWT.

  • Non-spatial scRNA-seq

    A dissociated dataset with no positions. You keep the composition and choose the population size.

  • Visium spatial data

    Spot-level spatial transcriptomics with real tissue geometry. The recipe where units matter most — pixel coordinates are not microns.

  • Spot deconvolution

    Visium spots with per-type probabilities, expanded into individual cells.

Which one is yours?

Your data has Recipe
No coordinates Non-spatial scRNA-seq
Coordinates and one cell-type label per row Visium spatial
Coordinates and *_probability columns Spot deconvolution

If your coordinates are a UMAP or t-SNE embedding rather than tissue positions, treat the data as non-spatial — see which source the spatial query found.