Bio::SearchIO::hmmer - A parser for HMMER2 and HMMER3 output (hmmscan, hmmsearch, hmmpfam)

       The rest of the documentation details each of the object methods.  Internal methods are usually preceded
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perl v5.30.0                                       2019-10-29                          Bio::SearchIO::hmmer(3pm)

       Email kai.blin-at-biotech.uni-tuebingen.de

       This object implements a parser for HMMER output. It works with both HMMER2 and HMMER3

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       Bio::SearchIO::hmmer - A parser for HMMER2 and HMMER3 output (hmmscan, hmmsearch, hmmpfam)

           # do not use this class directly it is available through Bio::SearchIO
           use Bio::SearchIO;
           my $in = Bio::SearchIO->new(-format => 'hmmer',
                                      -file   => 't/data/L77119.hmmer');
           while( my $result = $in->next_result ) {
               # this is a Bio::Search::Result::HMMERResult object
               print $result->query_name(), " for HMM ", $result->hmm_name(), "\n";
               while( my $hit = $result->next_hit ) {
                   print $hit->name(), "\n";
                   while( my $hsp = $hit->next_hsp ) {
                       print "length is ", $hsp->length(), "\n";
                   }
               }
           }