Are these samples good enough for DEA analysis?

Are these samples good enough for DEA analysis?

0

Hi all,
Are these samples good enough for DEA analysis?
Because I think the tumor and normal samples are not well separated.

enter image description here
Here is my code:

NormalizedCounts.scaled <- t(scale(t(NormalizedCounts) , scale = F))
pc <- prcomp(NormalizedCounts.scaled)

pcr <- data.frame(pc$rotation[,1:3] , Group = gr) 
ggplot(pcr, aes(PC1 , PC2 , color = Group)) + geom_point()

Thanks for any help.


PCA


RNA-Seq

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