I am also using Galaxy to analyze RNA-seq libraries from chicken.
While the names of the genes appear in the Cufflinks output, the FPKM values are all zero.



On Oct 20, 2011, at 9:12 AM, GANDRILLON OLIVIER wrote:

Hello

I am using Galaxy to analyse RNA-seq libraries made from chicken cells.

I just groomed my sequences, passed them through TopHat and then Cufflinks.

This worked well and in the end I get a list of genes and their respective FPKM values.

My only problem is that the names of the genes do not appears in the listing, they are simply reference as "CUFF.1, CUFF.2, " etc…

Could you please tell me how I could obtain gene names? (I went through the FAQ and could not get the answer).

Sincerely

Olivier



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New mail adress: olivier.gandril...@univ-lyon1.fr

Dr Olivier Gandrillon
Centre de Génétique et de Physiologie Moléculaires et Cellulaires
UMR CNRS 5534
Université Claude Bernard Lyon I
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"Comment obtenait-il l'adhésion du peuple aux nouveaux mensonges qu'il inventait chaque jour? Précisément parce que c'était des mensonges et précisément parce qu'ils étaient une insulte à la perception. Le peuple était hypnotisé par l'aplomb, ce droit qu'il s'octroyait de contredire l'évidence. Les gens portaient un regard médusé sur un Goebbels déchaîné. Ils voyaient en transparence son souhait énorme de nier le nain boiteux"

Tobie Nathan, in "Qui a tué Arlozoroff"

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