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ilan-gold avatar ilan-gold commented on July 20, 2024

I started this a while ago but the SpaceTx/Starfish objects are not as nice as AnnData. We need this anyway for HuBMAP

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keller-mark avatar keller-mark commented on July 20, 2024

Yeah the proprietary image data structures look like they may be tricky to work with. It looks like there are some conversion functions, (maybe you have already seen them):

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ilan-gold avatar ilan-gold commented on July 20, 2024

Yes I had seen that - I think my biggest hurdle was the fact that there isn't one object always returned. There are many possible "end results" so I sort of stopped, faced with the options, at the point of writing a wrapper since it was not clear to me what should be wrapped - anything returned or certain objects? And then there are non-returned results like the tiff which is an input but you want to visualize it. I imagine I was overthinking it but I became overwhelmed as happens sometimes....

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keller-mark avatar keller-mark commented on July 20, 2024

Ah I see. Maybe when it is ambiguous about what to visualize, special parameters (like we have for AnnDataWrapper https://github.com/vitessce/vitessce-python/blob/44bb572/vitessce/wrappers.py#L319) could help?

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