Comparing control vs treatment for 10x Multiome (RNA + ATAC) datasets
I have two multiome datasets (sn RNA and ATAC) - one for my treatment group and the other for my control. I'm interested in GEX analysis that is similar to this (https://satijalab.org/seurat/v3.2/immune_alignment.html). However the tutorial deals with a pre-existing dataset "ifnb". I am trying to figure out how from my cellranger count outputs I can come up with a data format like "ifnb" which somehow form the look of it combines two datasets.
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Since this is a relatively new kit you may need to follow
cellranger arcprotocol described here.seuratmay not have an equivalent available as yet but someone more familiar withseuratwill likely chime in soon.