Provided by: libbio-perl-perl_1.6.901-2_all bug

NAME

       Bio::Tools::Tmhmm - parse TMHMM output (TransMembrane HMM)

SYNOPSIS

         use Bio::Tools::Tmhmm;
         my $parser = Bio::Tools::Tmhmm->new(-fh => $filehandle );
         while ( my $tmhmm_feat = $parser->next_result ) {
            # do something, e.g.
            push @tmhmm_feat, $tmhmm_feat;
         }

DESCRIPTION

       TMHMM is software for the prediction of transmembrane helices in proteins.  See
       <http://www.cbs.dtu.dk/services/TMHMM/> for more details.

       This module parses the "long output" format of TMHMM 2.0 and creates a
       Bio:SeqFeature::Generic object for each "TMHelix" feature found from lines like this:

         my_sequence_id  TMHMM2.0  TMhelix     54    76

FEEDBACK

   Mailing Lists
       User feedback is an integral part of the evolution of this and other Bioperl modules. Send
       your comments and suggestions preferably to the Bioperl mailing list.  Your participation
       is much appreciated.

         bioperl-l@bioperl.org                  - General discussion
         http://bioperl.org/wiki/Mailing_lists  - About the mailing lists

   Support
       Please direct usage questions or support issues to the mailing list:

       bioperl-l@bioperl.org

       rather than to the module maintainer directly. Many experienced and reponsive experts will
       be able look at the problem and quickly address it. Please include a thorough description
       of the problem with code and data examples if at all possible.

   Reporting Bugs
       Report bugs to the Bioperl bug tracking system to help us keep track of the bugs and their
       resolution. Bug reports can be submitted via the web:

         https://redmine.open-bio.org/projects/bioperl/

AUTHOR - Torsten Seemann

       Email torsten.seemann AT infotech.monash.edu.au

CONTRIBUTOR - Bala

       Email savikalpa@fugu-sg.org

APPENDIX

       The rest of the documentation details each of the object methods.  Internal methods are
       usually preceded with a _

   new
        Title   : new
        Usage   : my $obj = Bio::Tools::Tmhmm->new();
        Function: Builds a new Bio::Tools::Tmhmm object
        Returns : Bio::Tools::Tmhmm
        Args    : Either of the following as per L<Bio::Root::IO> interface
                    -fh   => $filehandle
                    -file => $filename

   next_result
        Title   : next_result
        Usage   : my $feat = $Tmhmm->next_result
        Function: Get the next result set from parser data
        Returns : Bio::SeqFeature::Generic
        Args    : none