Cell type clustering
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Hi,
Thank you for sharing these scripts with us!
I am trying to use your data as well. I downloaded "All-snRNA-Spatial multi-omic map of human myocardial infarction" Rdata from Cellxgene(https://cellxgene.cziscience.com/collections/8191c283-0816-424b-9b61-c3e1d6258a77). I can find cell types and genes and a lot of useful information from the Seurat data. Thank you for that. But unfortunately, I could not get the cell clusters. From UMAP, I can only see the "local" group. Do you know how can I get the cell type identity or how can I repeat cell type clustering? I checked all the codes here. It is like I need to rerun all the codes using the raw data in the beginning. If you know how can I use the specific parts of codes on the Seurat RDS file to get the cell type identity and clusters?
Best regards,
Kai
Hi Kai,
Here you can find the objects containing the cell-state information: https://zenodo.org/record/7098004#.Y0P_SOxBweZ
The code to obtain those will be uploaded in the next days :)
Cheers
The code has been added in main branch