ArchR multiome pipeline integrate Seurat object related information

[Jiahuan90]

Hi rcores,

I have ran multiome scRNA-seq and scATAC pipeline following the webpage successfully. However, I have a question:

I use Seurat to run scRNA-seq part and already annotate cell types in Seurat object. But in the ArchR multiome pipeline, I have to use scRNA-seq filter Matrix as input, but not a Seurat object. Thus how could I integrate seurat related information to ArchR project?

Thank you for your help~

[rcorces]

You would have to import this data into cellColData by matching cell names. Cells that dont match across the two platforms would probably need to be removed using subsetArchRProject().