Re: [Transdecoder-users] Returning multiple hits per contig

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

Hi Adam,

We don't have that functionality currently built in to transdecoder.  With
bioperl, biopython, or other, you could probably script something out to do
it fairly easily, though. We'll consider adding such functionality in a
future release.

best,

~brian



On Wed, Jul 16, 2014 at 9:54 AM, Ciezarek, Adam <a.c...@im...
> wrote:

>  Dear sir or madam,
>
> I am using transdecoder to find the longest ORF within contigs, generated
> from RNA-seq data. I am only interested in analysing the longest ORF from
> each contig, but Transdecoder returns multiple for many contigs. Is there
> any way I can set it to just return one, or quickly remove all the shortest
> sequences?
>
> Thanks,
> Adam Ciezarek
>
>
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-- 
--
Brian J. Haas
The Broad Institute
http://broad.mit.edu/~bhaas