I have an issue with a dataset. I exported count matrix and metadata informations from a Seurat object with seurat::as.loom().
Then I followed the Running SCENIC tutorial. At the end of the Clustering part, we have a possibility to export results to loom file to be able to explore them with SCope.
I can load this loom file into SCope, but when I'm looking for a specific regulon, it said "No rows found" in the right tab.
Example with mouse brain dataset:
Example with my dataset:
Before running the export2loom() function, I checked if rownames(dgem) contains GenesID and yes... So I don't understand why it says that Atf3 regulate more than 1000 genes during selection but can't return the list in the right tab.
Hi!
Thank's for this very helpfull tool.
I have an issue with a dataset. I exported count matrix and metadata informations from a Seurat object with
seurat::as.loom().Then I followed the Running SCENIC tutorial. At the end of the Clustering part, we have a possibility to export results to loom file to be able to explore them with SCope.
I can load this loom file into SCope, but when I'm looking for a specific regulon, it said "No rows found" in the right tab.
Example with mouse brain dataset:
Example with my dataset:
Before running the export2loom() function, I checked if
rownames(dgem)contains GenesID and yes... So I don't understand why it says that Atf3 regulate more than 1000 genes during selection but can't return the list in the right tab.Any suggestion will be very helpful !
Thank's