[Bioperl-l] HMMER3 to GFF3

Douglas Hoen douglas.hoen at gmail.com
Thu Aug 12 10:24:27 EDT 2010


Hi Kai,

Here it is.

Thanks,
-- Doug


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On 2010-08-12, at 8:16 AM, Kai Blin wrote:

> On Wed, 11 Aug 2010 22:59:37 -0700 (PDT)
> Doug Hoen <douglas.hoen at gmail.com> wrote:
> 
> Hi Doug,
> 
>> Could someone please confirm whether the results are incorrect and, if
>> so, perhaps suggest a fix? It may well be that this problem is due to
>> the unusual way I am using hmmscan, rather than a problem with HMMER3
>> parsing...?
> 
> Can you please attach your hmmer input file? Along the way something
> inserted line breaks, making it unreadable.
> 
> It might well be possible that the HMMer3 parser still handles a little
> different from the HMMer2 parser, I haven't tried that script.
> 
> Cheers,
> Kai
> 
> -- 
> Dipl.-Inform. Kai Blin         kai.blin at biotech.uni-tuebingen.de
> Institute for Microbiology and Infection Medicine
> Division of Microbiology/Biotechnology
> Eberhard-Karls-University of T?bingen
> Auf der Morgenstelle 28                 Phone : ++49 7071 29-78841
> D-72076 T?bingen                        Fax :   ++49 7071 29-5979
> Deutschland
> Homepage: http://www.mikrobio.uni-tuebingen.de/ag_wohlleben



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