Re: [Transdecoder-users] Does TranscriptDecoder also predict polyA?

[Brian H. <bh...@br...>]

Hi,

TransDecoder does not take into account whether a transcript is
polyadenylated or not. It strictly looks at open reading frames and coding
potential.

best,

~brian



On Sat, Jul 19, 2014 at 2:38 PM, Trakhtenberg, Feliks <
Eph...@ch...> wrote:

>  Hello, I am new to TranscriptDecoder. Does it consider whether a novel
> transcript with a predicted ORF is also predicted to be polyadenylated? I
> assumed if no polyA can be predicted, then even if ORF is predicted, such
> transcript may not produce a protein. My input is a group of novel
> transcripts predicted by Cufflinks analysis. Would appreciate feedback.
> thank you
>
>
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-- 
--
Brian J. Haas
The Broad Institute
http://broad.mit.edu/~bhaas