Thread: DESeq problems
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Old 08-05-2013, 04:44 AM   #18
Devon Ryan
Location: Freiburg, Germany

Join Date: Jul 2011
Posts: 3,480

The validity of the statistical model used by DESeq depends on its input being integer read counts directly from individual samples. Trying to use anything else will just produce unreliable results.

So yes, use htseq-count to generate your count matrix.
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