-
```
Error executing job with overrides: ['dataset=20263-slide1_A1-3_DAPI', 'paths=output']
Traceback (most recent call last):
File "/srv/scratch/benjaminr/napari-spongepy/src/napari_spongepy/pipe…
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Hi,
**I wanted to apply "call_cellchat" method to run example data you provided in tutorial.**
**But I had a problem. Here is the output during running liana_wrap:**
> Now Running: Call_cellcha…
AIBio updated
2 years ago
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...
Dear Authors,
Thank you for developing such a tool and thank you for reading my question.
I was trying to calculate Neighborhood enrichment and ligated-receptor interaction on a Visium sl…
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## Description
Follow-up feature to #481 - I think it could be nice for plotting to add a matplotlib ax keyword to all built-in plot functions which would allow passing arbitrary axes instances to …
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Hi,
I don't quite understand about the "library_key" parameter in sq.gr.spatial_neighbors. I have integrated several datasets in an anndata object, the datasets are from different 10xvisium samples. …
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...
Hello,
I had a question concerning image segmentation and feature extraction. I am using a Visium image with H&E stains.
When I follow your [tutorial](https://squidpy.readthedocs.io/en/stab…
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## Description
After reading the vizgen output and constructing the Anndata object, sc.pl.spatial function call triggers a keyerror.
## Minimal reproducible example
```python
region…
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I keep getting the following error from `plot_auc()` on Linux, any idea why that is? It works on Windows on the same data.
```
tg.plot_auc(df_all_genes)
------------------------------------…
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Hello, thank you for creating such a useful tool, I am very happy to use it in my data, but when I draw a graph with tg.plot_cell_annotation_sc, I find that the coordinates are flipped, how can I solv…
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AnnData and preprocessed data object should be cached and reused between components.
Possible solutions:
- [ ] look up in napari plugin manual
- [ ] save in python global object
- [ ] a singleton dic…