Entering edit mode
6.9 years ago
kamula ▴ 10
I have 13 RNA-seq samples, all from the same condition, but with slight variations in genotype (that i believe are functionally insignificant in this condition).
How can I convince myself that I can use these 13 samples as replicates?
I've thought of using DE-Seq2 to find that there are no DE genes, but without replicates I'm not sure how much I can trust this.
You could do principle component analysis or look at the correlations between samples. Make sure to use between-sample normalized expression values.