Hi Fabrice,

when you use DESeq after normalizing you get the size factors. I think that
if you divide your count data by the size factor you get the normalized
count.
Kind regards,
Andreia

On Wed, Aug 17, 2011 at 12:29 AM, Fabrice Tourre <fabrice.ciup@gmail.com>wrote:

> Dear list,
>
> I have got the raw counts for each exon using HTSeq-count.
> I want to use DESeq to normalise the counts. How can I output the
> Normalised count data from DESeq?
>
> Thank you
>
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-- 
---------------------------------------------------------------------------------------------
Andreia J. Amaral, PhD
BioFIG - Center for Biodiversity, Functional and Integrative Genomics
Instituto de Medicina Molecular
University of Lisbon
Tel: +352 217500000 (ext. office: 28253)
email:andreiaamaral@fm.ul.pt ; andreiaamaral@fc.ul.pt

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