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Hi,
Thank you for the xenium library. I've been using it, to good effect, to hash values from multiple threads with a reasonable amount of contention. Performance is great.
How should I be cle…
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Hi Baysor Team,
I am a new-ish user to the baysor tool and have a series of Xenium samples our group is trying to re-segment. After multiple iterations of config settings it seems that I have yet t…
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Hi,
I am currently working with biopsy samples in Xenium. In my FFPE slides, I have 3-4 masses for each sample. After using the cv2_detect_contour function, I noticed that only one mass was success…
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When running the vignette [Use landmark annotations to align multiple -omics layers](https://spatialdata.scverse.org/en/stable/tutorials/notebooks/notebooks/examples/alignment_using_landmarks.html), I…
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- [ ] all the paths used in notebooks `00_xenium_and_visium.ipynb`, `01_xenium_and_visium.ipynb` and `02_xenium_and_visium.ipynb` should be placed in a `config.py` file
- [ ] `sandbox.zarr` was a poo…
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Hello,
Thank you for the package! I am encountering a couple of issues and would appreciate your guidance.
### Issue 1: Capacity Error with `readXenium()`
I am working with multiple Xenium sa…
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**Describe the Error**
Hello, I'm trying to convert a Giotto object into a Seurat object to calculate module scores. However, I've encountered errors when trying different input parameters. Has any…
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Hi,
Thank you for the help with the polygons previously. We're trying to investigate some polygons of interest but we get different cells selected when we investigate the same regions in Xenium ex…
EST09 updated
7 months ago
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## Description
I am trying to use the sopa.io.wsi function to read a ome.tif file
## Reproducing the issue
image = sopa.io.wsi("Xenium_V1_hPancreas_Cancer_Add_on_FFPE_he_image.ome.tif", as_image=…
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Hi,
This is a visium_HD object from spatialdata documentation, there are three tables in this object:
```
SpatialData object with:
├── Images
│ ├── 'Visium_HD_Mouse_Small_Intestine_cytassist_…