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Old 11-22-2016, 04:48 PM   #1
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Location: china

Join Date: Nov 2016
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Default use Deseq to calculate samples partially without replicates

Hello everyone,

Recently, I tried to use DESeq to calculate the differential expression of some samples.

The samples to be compared was partially without replicates. A was untreated , B,C,D were treated.

I used like this: resUUT = nbinomTest( cdsUUT, "untreated", "treated" ).But some results made me confused, such as gene3955 , the count in A is 3408, B is 98, C is 411, D is 202. But I found the result is upregulated, FDR is 0.027 and log2FC is 2.8. I wonder if this is right.
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