[Bioperl-l] HMMER3 to GFF3

Kai Blin kai.blin at biotech.uni-tuebingen.de
Thu Aug 12 08:16:45 EDT 2010


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 Tübingen
Auf der Morgenstelle 28                 Phone : ++49 7071 29-78841
D-72076 Tübingen                        Fax :   ++49 7071 29-5979
Deutschland
Homepage: http://www.mikrobio.uni-tuebingen.de/ag_wohlleben



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