Provided by: libbio-perl-perl_1.7.6-3_all bug


       Bio::Tools::Match - Parses output from Transfac's match(TM)


         use strict;

         use Bio::Tools::Match;

         my $parser = Bio::Tools::Match->new(-file => "match.out");

         while (my $feat = $parser->next_result) {
           my $start = $feat->start;
           my $end = $feat->end;
           my $core_score = $feat->score;
           my $matrix_score = ($feat->annotation->get_Annotations('matrix_score'))[0]->value;
           my $matrix_id = ($feat->annotation->get_Annotations('matrix_id'))[0]->value;


       This module is used to parse the output from Transfac's match(TM) program. It doesn't
       support the histogram output of match.

       Each result is a Bio::SeqFeature::Annotated representing a single matrix match.


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AUTHOR - Sendu Bala



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

        Title   : new
        Usage   : my $obj = Bio::Tools::Match->new();
        Function: Builds a new Bio::Tools::Match object
        Returns : Bio::Tools::Match
        Args    : -file (or -fh) should contain the contents of a standard match output

        Title   : next_result
        Usage   : $result = $obj->next_result();
        Function: Returns the next result available from the input, or undef if there
                  are no more results.
        Returns : Bio::SeqFeature::Annotated object. Features are annotated with tags
                  for 'matrix_score', 'matrix_id' and a 'predicted' tag.
        Args    : none