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New docs section: how to integrate spatialdata in your tool #751

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LucaMarconato opened this issue Nov 1, 2024 · 1 comment
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@LucaMarconato
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Aim: adding a page in the docs to help methods developers that want to use SpatialData in their tools.

The page could cover the following, showing how SpatialData could be used at various levels:

  • Only downstream. E.g. visualization: one could handle everything outside SpatialData and just export to SpatialData to access napari-spatialdata, spatialdata-plot and soon vitessce
  • Only upstream. E.g. data ingestion: one could use spatialdata-io to read the raw data from common techs into xarray/geopandas/anndata objects and forget about SpatialData objects
  • Fully integrated. E.g. SOPA, bento-tools, squidpy: SpatialData is used as a core data structure for internal representation and (to different degrees) object manipulation.
@quentinblampey
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Regarding the fully integrated section:
We want to add small demos of tools that are using SpatialData as a backend: bento (@ckmah), Sopa, squidpy, ...

@quentinblampey quentinblampey moved this to 🕠 Posponed in Basel Hackathon Nov 2024 Nov 14, 2024
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