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David,
Quartile normalization is explained in the Cufflinks manual:
http://cufflinks.cbcb.umd.edu/manual.html --
With this option, Cufflinks normalizes by the upper quartile of the number of
fragments mapping to individual loci
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Can someone help me understanding the quartile normalization in Cufflinks? I
read different threads in which they reported that the FPKM values were
inflated after normalization (-N) but most people didn't report their values
so I don't
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