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


       Bio::Tools::Seg - parse "seg" output


         use Bio::Tools::Seg;
         my $parser = Bio::Tools::Seg->(-file => 'seg.fasta');
         while ( my $f = $parser->next_result ) {
           if ($f->score < 1.5) {
             print $f->location->to_FTstring, " is low complexity\n";


       "seg" identifies low-complexity regions on a protein sequence.  It is usually part of the
       "WU-BLAST" and "InterProScan" packages.

       The Bio::Tools::Seg module will only parse the "fasta" output modes of "seg", i.e. "seg
       -l" (low complexity regions only), "seg -h" (high complexity regions only), or "seg -a"
       (both low and high).

       It creates a Bio::SeqFeature::Generic for each FASTA-like entry found in the input file.
       It is up to the user to appropriately filter these using the feature's score.


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       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::Seg->new();
        Function: Builds a new Bio::Tools::Seg object
        Returns : Bio::Tools::Seg
        Args    : -fh/-file => $val, # for initing input, see Bio::Root::IO

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