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Last seen 9.6 years ago
Hi!
We selected a priori 5 genes to analyse and want to include them in a
table for publication.
Question is how to present them? Normally we would calculate fold
changes (or percent) with standard deviation and then mark if
significant.
edgeR, as far as I understand, uses shrunken fold changes and the
dispersion is squeezed using an empirical Bayes method. Thus, its hard
to manually reproduce the results from logCPM values.
So, whats the best way?
Thank you!
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