Analysis of cell ranger ARC output data

Question

[Srinka]

I have got the Cell ranger ARC data which is the merged data of ATAC + gene expression. Can I get an idea of how to analyze that data for downstream analysis as scRNA and scATAC seq has different process of analysis?

[Papyrus]

You could try the Seurat WNN tutorial for integrating Multiome 10x RNA + ATAC data. Basically you would pre-process the datasets independently (RNA with Seurat and ATAC with Signac/Seurat) and then join them in the same Seurat object.