Alik Huseynov
Alik Huseynov
which Seurat and SeuratObject versions are you using? see this : - https://github.com/satijalab/seurat/issues/7080#issuecomment-2187446094
> I also encounter the same issue running the [vignette](https://satijalab.org/seurat/articles/seurat5_spatial_vignette_2). > > The files I used is the same > > ``` > (base) LH3W0CD9W3:~ lku$ ls /Users/lku/Desktop/CCI2/vizgen/s2r1/ > cell_boundaries...
@SarahE97 which `branch` of `Seurat` are you using? does it work to read manually the centroids and segmentations files, then you can check if they are `NULL` or not ```...
> @alikhuseynov I'm using the most up to date Seurat version from CRAN (Seurat 5.0.1). When I run this code: data.dir
ok, thanks. The good news is that it does seem to read what is needed, but for some reason it stores each variable as vector. So, there is definitely a...
I think the bug is using `sapply` in `data
> @alikhuseynov Thank you very much for this, how would I modify the ReadXenium function to pass that? no problem :) if you want to test it, just add `simplify...
just did a PR to fix that.
> Thanks so much to all of you for the suggestions, unfortunately I tried adding simplify = FALSE, and got some different errors: > This is the error I get:...
> @alikhuseynov thanks for the help on this! I added on a quick one liner [here](https://github.com/alikhuseynov/seurat/pull/1) that will fix an issue that this will eventually hit (unrelated to the `simplify...