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Support SpatialData #286

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Tracked by #1834
keller-mark opened this issue Jan 31, 2023 · 3 comments
Open
Tracked by #1834

Support SpatialData #286

keller-mark opened this issue Jan 31, 2023 · 3 comments
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@keller-mark
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keller-mark commented Jan 31, 2023

User story

We want to support loading SpatialData objects, including local SpatialData objects.

Preferred solution

To do this, we need an analog of the AnnDataWrapper class but for SpatialData. This wrapper class allows us to:

  • know which parts/keys of the object should be used in the configuration, and how those keys should map to Vitessce concepts
  • Serve the local Zarr directory on localhost so that the widget JS code can request the data via HTTP

Relevant code/documentation:

@keller-mark keller-mark added the feature New feature or request label Jan 31, 2023
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@keller-mark keller-mark changed the title Support SpatialData (once stable) Support SpatialData Sep 3, 2023
@keller-mark keller-mark transferred this issue from another repository Sep 3, 2023
@keller-mark keller-mark added data_utils and removed feature New feature or request labels Sep 3, 2023
@keller-mark keller-mark pinned this issue Jan 24, 2024
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Depends on vitessce/vitessce#1728

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keller-mark commented Apr 1, 2024

We will also want to embed an example notebook in the documentation that demonstrates how to use the implementation. These notebooks are located at https://github.com/vitessce/vitessce-python/tree/main/docs/notebooks

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