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Old 11-25-2014, 11:06 PM   #5
gringer
David Eccles (gringer)
 
Location: Wellington, New Zealand

Join Date: May 2011
Posts: 835
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I would agree with kopi-o. The normalisation isn't based on the total counts, it's based on the distribution of counts across all genes. If you want a slightly more accurate comparison to size factors (but fairly easy to calculate), try splitting the count data into quantiles, or look at (say) the 75th percentile count instead of the total count.
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