Open jluethi opened 5 months ago
Yes!
If the original data lives in (z,y,x) dimensions, and a z-projection is used for object measurements (example: 2D segmentation of organoids + basic 2D feature extraction), it would be nice to have such measurements copied to the 3D OME-Zarr as well, and not only to have them in the _mip.zarr
This would require the option to copy over from 2D to 3D specific ROI_table(s), which maybe could be specified by the user? I doubt for instance that the FOV or well_ROI_table it's something the user would want to lift over, but maybe the label_ROI_table, as well as the measurements tables could be interesting to have.
This would require the option to copy over from 2D to 3D specific ROI_table(s), which maybe could be specified by the user? I doubt for instance that the FOV or well_ROI_table it's something the user would want to lift over, but maybe the label_ROI_table, as well as the measurements tables could be interesting to have.
Fully agreed!
You can already copy over label_ROI_table
, as those are important to e.g. make 3D measurement per object from 2D. You can specify which ROI tables you want to copy over by using the ROI_tables_to_copy
parameter of the task.
I see 2 ways to proceed:
tables_to_copy
.I'd default to option 2
TBD details @silvbarb Want to elaborate a bit?