-
## Description
Hello, Squidpy seems not to read the newly released Xenium 5K data (https://www.10xgenomics.com/datasets/preview-data-xenium-prime-gene-expression) correctly. In particular, the fu…
-
The [transformation notebook](https://spatialdata.scverse.org/en/latest/tutorials/notebooks/notebooks/examples/transformations.html) is centered on showing how the API works and not in telling a biolo…
-
If you look at "Xenium" or "MERFISH" examples, it is difficult to identify which versions are being displayed. Including the version numbers would be helpful in deciding whether to apply the changes t…
-
Hello,
I have a few Xenium samples and have encountered a plotting artifact when using the segmentation. This happens for all samples (cell numbers ranging from 4800 to over 125000, so quite a wid…
-
CC @giovp @LLehner
The 10x team reviewed the Xenium notebook and found it very useful! (Btw, it's ready to merge https://github.com/scverse/squidpy_notebooks/pull/125).
They suggested to consid…
-
### Description of feature
https://www.10xgenomics.com/support/software/xenium-ranger/latest
**!! Please check with nf-core and 10x how to implement this as a module to avoid copy right and mainte…
heylf updated
2 months ago
-
Hi everyone,
I’m currently working on Xenium (10x Genomics) data analysis, which contains 321 targeted genes. To explore more, I would like to merge and integrate public data with my Xenium dataset…
-
When I subset a Xenium object, the molecules of the parent object are not touched. I'm not sure if this is the expected behavior but I was wandering if the was a way to keep only the molecules within …
-
Sorry for the continuous questions, and I'm really at the beginning stage of spatial transcriptomics.
I aligned my confocal image (Z-stack OME TIFF file) with the Xenium dataset in Xenium Explorer.…
-
I see another users post that had a similar issue that I have run into and closed thinking it might be a v1.6 issue.
I have an authentic Xenium ICE that is installed in my Xbox V1.0
I've been try…