-
### Task motivation
Spatially resolved transcriptomics offers unprecedented insight by enabling the profiling of gene expression within the intact spatial context of cells, effectively adding a new a…
-
Hi!
I have been running Giotto on some Visium data, using a script very similar to your [mouse brain vignette](https://rubd.github.io/Giotto_site/articles/mouse_visium_brain_201226.html).
However,…
-
Hello,
Your approach looks very interesting! And I hope your pre-print will get accepted.
I would like to run xfuse on GPU cluster using one dataset from Visium. Few questions:
- does one need t…
-
Hi,
When I ran inferIntrScore() and inferSignif() on my own dataset, it gave following messages:
```
== Calculating diffusible ligand-receptor scores ==
Computing LR-scores using diff_dep da…
-
Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/JEFworks-Lab/SEraster
Confirm the following by ed…
-
Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/YMa-lab/CARDspa
Confirm the following by editing …
-
- download a data of choice from 10x genomics with `sc.datasets_visium_sge()` (you can browse them [here](https://support.10xgenomics.com/spatial-gene-expression/datasets))
- run the scanpy tutorial,…
giovp updated
3 years ago
-
Hello,
Thank you for the work on the STAMarker tool. I am interested in using STAMarker to analyze my own spatial data. However, while following the tutorial provided in "Mouse-cerebellum.ipynb," I h…
-
Hello Seurat Team,
I am encountering an issue with the `FindSpatiallyVariableFeatures` function in the Seurat package. Despite following the function's documentation and ensuring correct usage, I a…
-
Hi @SONGDONGYUAN1994 @qw130 , thanks for your contribution to scDesign3! I have an interesting question to discuss: Do you have any ideas for generating spatially invariant genes when simulating new s…