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Converting sub-volumes to/from other file formats #1

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@ruaridhg
  • Explanation of how to do this in the textbook (Exporting chunked datasets w/ examples i.e. processing in tiff/nifiti/dicom and then writing back to zarr)
  • Potential explanation of how to do this with multi-scale data i.e. ome-zarr (difficult to put back into multi-resolution data)
  • Create an issue for actually implementing it

Effectively chunk2stack i.e. zarr --> tiff/nifti/dicom (reverse of https://github.com/HiPCTProject/stack-to-chunk)
Start with a Jupyter notebook (step 0) before implementing (step 1)
Step 2 keeping track of co-ordinates.

Would need some kind of metadata spec for keeping track of exported sub-volumes.

Bounding box in Napari to pull out data into tiffs (see https://hoa-tools.readthedocs.io/en/stable/tutorial/vois/ for co-ordinates across different resolutions as a part-solution for this purpose) - dependency on #10

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