Input annotated 10x Multiome Seurat object into SCENIC+

aertslab / scenicplus

SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) and single-cell chromatin accessibility (scATAC-seq) data.

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Input annotated 10x Multiome Seurat object into SCENIC+ #452

Closed strawberry098 closed 3 months ago

strawberry098 commented 3 months ago

Is it possible to input clustered and annotated 10x Multiome Seurat object into SCENIC+?

Then it is not necessary to cluster the cells according to: https://github.com/aertslab/pycisTopic/blob/old/notebooks/Toy_melanoma-RTD.ipynb

But how can I retrieve the region sets to run SCENIC+?

SeppeDeWinter commented 3 months ago

Hi @strawberry098

Please don't open duplicate issues: https://github.com/aertslab/scenicplus/issues/451.

All the best,

Seppe