r – Can I analyze RNAseq data from two different cell types using the design matrix model.matrix(~0 + group + celltype)?

I have two cell types(11C and 13C) and two groups (KO and CTRL).

sample celltype group

11C-17 11C KO

11C-84 11C KO

11C-C 11C CTRL

13C-17 13C KO

13C-84 13C KO

13C-C 13C CTRL

As shown in the PCA plot, the cell type is the dominant difference. But, I’d like to know whether it’s possible to analyze them together by design matrix design <- model.matrix(~0 + group + celltype) and contrast matrix contrast.matrix <- makeContrasts(KOvsCTRL = KO – CTRL, levels=colnames(design)) to just compare the two groups.

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