Dear all,
I know there are thousands of posts regarding this topic.
HOW one can choose the best normalization method in edgeR??
I know that TMM is implemented in edgeR, but you can use other normalizations by entering lib.size and norm.factors in the edgeR DGE list object.
My problem is that when I compare the results I obtained with the TMM, total count and upper quartile normalization methods I obtained different results.
So what is the criteria for choosing the best normalization method?
I know there are thousands of posts regarding this topic.
HOW one can choose the best normalization method in edgeR??
I know that TMM is implemented in edgeR, but you can use other normalizations by entering lib.size and norm.factors in the edgeR DGE list object.
My problem is that when I compare the results I obtained with the TMM, total count and upper quartile normalization methods I obtained different results.
So what is the criteria for choosing the best normalization method?
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