Roberta, I'm traveling right now so I'm forwarding your message to our
help list. Thanks.
---------- Forwarded message ----------
From: Roberta Galletti <roberta.galle...@ens-lyon.fr>
Date: Tue, Sep 11, 2012 at 5:19 AM
Subject: Re: Galaxy: RNA-seq analysis problems
To: James Taylor <ja...@jamestaylor.org>
sorry to bother you again, but I've one more question for you. I know
that most existing methodologies to analyze RNA-seq data, have a
strong dependency on sequencing depth for their differential
expression calls and that this results might have a considerable
number of false positives. Unfortunately, 1 out of 3 biological
replicates of a set of my samples have a much bigger seq depth with
respect to the other two samples. Do the programs in the Galaxy NGS:
RNA Analysis section take into account this problem and normalize it?
Thank you in advance for you help,
On 6/11/2012 5:36 PM, James Taylor wrote:
Glad to hear it! Thanks!
On Jun 8, 2012, at 9:37 AM, Roberta Galletti wrote:
I managed to make it work. Thank you for your help.
Roberta Galletti, PhD
Laboratoire de Reproduction et Développement des Plantes
Ecole Normale Supérieure de Lyon, UMR 5667
46, allée d'Italie
69364 LYON cedex 07
e-mail 1: roberta.galle...@ens-lyon.fr
e-mail 2: ro.galle...@tiscalinet.it
Skype contact: roberta1977
...A lab is just another place to play....
From 'Dancing naked in the mind field'
Kary B. Mullis, Nobel Prize in Chemistry 1993.
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