Add support for 3D ROIs

[ajtritt]

2. Feature Request

• Replace manifold with start coordinate + deltas
• Add ImagingRegion that supports 2D or 3D regions
• Add RegionSegmentation
  - can be a copy with PlaneSegmentation with ImagingRegion swapped for ImagingPlane
• add Pending deprecation to ImagingPlane and PlaneSegmentation
• add zero or more RegionSegmentation to ImageSegmentation
• Add 3 dimensions where only 2 dimensions are allowed:
  - PixelMasks
  - ImageMasks

Problem/Use Case

Some labs are imaging across volumes. Currently, the schema is restricted to imaging across planes.

Checklist

• Have you ensured the feature or change was not already reported ?
• Have you included a brief and descriptive title?
• Have you included a clear description of the problem you are trying to solve?
• Have you included a minimal code snippet that reproduces the issue you are encountering?

[bendichter]

What's the purpose of having ImageSegmentation and RegionSegmentation? What if we just had ≥0 ImageSegmentation objects and did away with RegionSegmentation

[bendichter]

also, are we including the idea that pixel mask is removed and rendered on the fly?

[ajtritt]

What's the purpose of having ImageSegmentation and RegionSegmentation? What if we just had ≥0 ImageSegmentation objects and did away with RegionSegmentation

For consistency with the current schema.

also, are we including the idea that pixel mask is removed and rendered on the fly?

Lets keep pixel mask for now. We can add a function for autogenerating a pixel mask from an image mask to deal with the inconvenience.