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Associate optional mask to each ROI (in tables), and use it for I/O selection #195

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tcompa opened this issue Nov 9, 2022 · 2 comments
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Priority Important, but not the highest priority Tables AnnData and ROI/feature tables

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@tcompa
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tcompa commented Nov 9, 2022

(branching from #45)

This requires #194

@jluethi
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jluethi commented Dec 14, 2022

Just to make sure we don't duplicate work here: The optional mask would be the label image. And the association should be possible via the metadata of the ROI table & the obs dataframe of AnnData.
See the proposed OME-Zarr table spec: ome/ngff#64
My understanding is that we'd use the region_key in .zattrs to specify which column in the obs dataframe contains the relative path to the label image. For our use case here and the current implementation, each row of the dataframe would point to the same label image (but one could eventually also store e.g. a combined ROI table, where they point to the different label images in the different wells)

@tcompa tcompa added the High Priority Current Priorities & Blocking Issues label Feb 15, 2023
@tcompa tcompa added Priority Important, but not the highest priority High Priority Current Priorities & Blocking Issues and removed High Priority Current Priorities & Blocking Issues labels Feb 23, 2023
@tcompa tcompa self-assigned this Mar 1, 2023
@tcompa tcompa removed the High Priority Current Priorities & Blocking Issues label Mar 1, 2023
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tcompa commented Mar 8, 2023

Close in favor of #333.

@tcompa tcompa closed this as completed Mar 8, 2023
@tcompa tcompa added the Tables AnnData and ROI/feature tables label Sep 19, 2023
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Priority Important, but not the highest priority Tables AnnData and ROI/feature tables
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