Can I combine several pseudobulked scRNAseq and bulk RNAseq datasets for DESeq2 analysis?
Hi!
I want to infer the expression differences between condition1 and condition2. I've collected data from multiple sc-RNA-seq and several bulk RNA-seq studies that each have samples in both conditions. I was wondering whether it would make sense to analyze all of them together using DESeq2 (pseudobulking sc-level datasets first), including a dataset name as a covariate. I feel like it might be more powerful than downstream meta analysis of individual DESeq2 results. Or is it an incorrect thing to do?
Thanks!
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