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**User story**
User has a SpatialData object that contains multiple regions but they only want to visualize a particular region of interest.
**Preferred solution**
When loading data from …
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Figshare is terrible. Let's see whether we can switch to Huggingface
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#100 did this:
> - Remove scanpydoc dependency
> - Add typed returns custom extension like in scanpy
> - Use same autosummary class template as in scvi-tools (single page for classes with methods…
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### Please make sure these conditions are met
- [X] I have checked that this issue has not already been reported.
- [X] I have confirmed this bug exists on the latest version of scanpy.
- [ ] (op…
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Hi everyone,
as discussed, we want to write the MCMICRO spatialdata-io reader (https://github.com/scverse/spatialdata-io/blob/main/src/spatialdata_io/readers/mcmicro.py) as an [nf-core DSL2 nextflo…
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```python
import pandas as pd
import lazyslide as zs
# Slide metadata
metadata = pd.DataFrame({
"slide": ["slide1", "slide2", "slide3"],
"class": ["cancer", "normal", "cancer"]
})
…
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**User story**
```[tasklist]
### Tasks
- [x] Shapes - circles (with fixed radius)
- [ ] Shapes - circles with radius column
- [ ] [Shapes - polygons](https://github.com/vitessce/vitessce/issues…
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I was just wondering if there is a specific reason why the 10x h5 reader function is not implemented in anndata. It would be great if this format could be loaded without the need to load the whole sca…
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Dear Community,
I have stitched CODEX images directly after the run and I segemented the image in QuPath. The result is a csv where each row is a cell with multiple columns of Marker Expressions, X…
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**Dear MILOlab**,
when I try to **_convert my adata_sp object to SPATA2_**, some errors occur below
```{r}
spata_object
```
thanks!