spatialdata
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scverse
An open and interoperable data framework for spatial omics data
After writing the object to disk, the pretty print functionality triggered by just displaying the `sdata` blobs object in a notebook runs into this uncaught error. ```python File /opt/hostedtoolcache/Python/3.12.10/x64/lib/python3.12/site-packages/spatialdata/_core/spatialdata.py:1073, in...
**Describe the bug** I ran in an issue when rasterizing shapes to labels. The mapping between labels and shapes seems to be messed up, when `rasterize` when the coordinate range...
**Is your feature request related to a problem? Please describe.** There are currently two ways to store 2.5D data (points, images, labels) in a SpatialData object (as far as I...
**Is your feature request related to a problem? Please describe.** The Design Doc for Points currently states: > Each observation is a point, and might have additional information (intensity etc.)...
**Is your feature request related to a problem? Please describe.** When accessing the Parquet data for points and shapes on-disk (for Vitessce), it is currently unclear which column of the...
This PR adds a new `delay_z_scaling` parameter to `Image3DModel.parse()` that enables delayed scaling along the Z dimension for 3D images. This is particularly useful for 3D image visualization where preserving...
**Is your feature request related to a problem? Please describe.** Given 3D image with original TCZYX shape `[ 1, 12, 194, 3181, 4045 ]`, I want the following multiscales: -...
`concatenate` on points should just contain multiple tables instead of concatenating them. TODO: add more details
## Bug description I stumbled upon an error when trying to aggregate an `Image2DModel` by a `Labels2DModel` in the case one of the two has a transform attached which is...
Reported via email by a user. I contact you because of a minor issue, though. I have an image of a tissue section and I would like to crop an...
