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**Is your feature request related to a problem? Please describe.**
A clear and concise description of what the problem is. Ex. I'm always frustrated when [...]
It'd be elegant to be able to chain …
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Dear Developer,
I'm trying to use the sopa to output the xenium file, so I can open it with xenium.
but I got the error said no cell circles, I actually have this one in my spatialdata (pelase c…
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Hello,
Following the agenda from the 2024/09/05 SpatialData community meeting, below is a code example to reproduce the process of:
1. Loading an SpatialData object into napari_spatialdata
2. P…
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Aim is to use SpatialData is the data storage backend underlying the SPARCS workflow. This allows us to interface with many existing software solutions and build up on the existing software frameworks…
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Please just post/link functions here that do not work with `SpatialData` - we will then gradually port those over.
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Hi,
I want to render a specific channel in a Xenium data image using `.pl.render_images()`.
If I don't specified a colormap (i.e. input argument `cmap=None` by default), it works, however if I spe…
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As per the title, I just ran into a case where `datashader` was chosen as the method for `render_points`, which led to my points being plotted without the relevant transformation being applied. I stol…
clwgg updated
3 hours ago
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Hello,
I have re-run cell segmentation for my Xenium data using Xenium Ranger version 2.0.0.12 to benefit from its improved segmentation algorithm. I can't read the re-segmented data with `spatiald…
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Hi,
I find the coordinate differs a lot between 10xXenium analyzer and spatialdata. This is figures from 10xXenium analyzer:
![image](https://github.com/user-attachments/assets/9b36a922-1b18-4aab-92…
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Sparse array could be both computational and space-efficient when storing mask images. I wonder if it's possible to support sparse array in NGFF spec.
Just for reference scverse/spatialdata#691