I have a read count matrix (row: genes; column: samples) from which I generated scaling factors using EdgeR 'calcNormFactors' function, set with different methods ("TMM","RLE","upperquartile").
Now I have my raw read counts matrix and vectors of scaling factors for each samples.
How do I get a normalised expression matrix:
raw count / scaling factor
raw count * scaling factor
raw count / (library size * scaling factor)
or by another way?
Thanks for your explanations.