Bio::SeqFeature::SimilarityPair - Sequence feature based on the similarity

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

   new
        Title   : new
        Usage   : my $similarityPair = Bio::SeqFeature::SimilarityPair->new
                                        (-hit   => $hit,
                                         -query => $query,
                                         -source => 'blastp');
        Function: Initializes a new SimilarityPair object
        Returns : Bio::SeqFeature::SimilarityPair
        Args    : -query => The query in a Feature pair
                  -hit   => (formerly '-subject') the subject/hit in a Feature pair

   query
        Title   : query
        Usage   : $query_feature = $obj->query();
                  $obj->query($query_feature);
        Function: The query object for this similarity pair
        Returns : Bio::SeqFeature::Similarity
        Args    : [optional] Bio::SeqFeature::Similarity

       See Bio::SeqFeature::Similarity, Bio::SeqFeature::FeaturePair

   subject
        Title   : subject
        Usage   : $sbjct_feature = $obj->subject();
                  $obj->subject($sbjct_feature);
        Function: Get/Set Subject for a SimilarityPair
        Returns : Bio::SeqFeature::Similarity
        Args    : [optional] Bio::SeqFeature::Similarity

   hit
        Title   : hit
        Usage   : $sbjct_feature = $obj->hit();
                  $obj->hit($sbjct_feature);
        Function: Get/Set Hit for a SimilarityPair
        Returns : Bio::SeqFeature::Similarity
        Args    : [optional] Bio::SeqFeature::Similarity

   source_tag
        Title   : source_tag
        Usage   : $source = $obj->source_tag(); # i.e., program
                  $obj->source_tag($evalue);
        Function: Gets the source tag (program name typically) for a feature
        Returns : string
        Args    : [optional] string

   significance
        Title   : significance
        Usage   : $evalue = $obj->significance();
                  $obj->significance($evalue);
        Function:
        Returns :
        Args    :

   score
        Title   : score
        Usage   : $score = $obj->score();
                  $obj->score($value);
        Function:
        Returns :
        Args    :

   bits
        Title   : bits
        Usage   : $bits = $obj->bits();
                  $obj->bits($value);
        Function:
        Returns :
        Args    :

perl v5.32.1                                       2021-08-15               Bio::SeqFeature::SimilarityPair(3pm)

       Email hlapp@gmx.net or hilmar.lapp@pharma.novartis.com

       Lightweight similarity search result as a pair of Similarity features. This class inherits off
       Bio::SeqFeature::FeaturePair and therefore implements Bio::SeqFeatureI, whereas the two features of the
       pair are descendants of Bio::SeqFeature::Generic, with better support for representing similarity search
       results in a cleaner way.

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

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       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.

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

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       Bio::SeqFeature::SimilarityPair - Sequence feature based on the similarity
                         of two sequences.

         $sim_pair = Bio::SeqFeature::SimilarityPair->from_searchResult($blastHit);

         $sim = $sim_pair->query(); # a Bio::SeqFeature::Similarity object - the query
         $sim = $sim_pair->hit();   # dto - the hit.

         # some properties for the similarity pair
         $expect = $sim_pair->significance();
         $score = $sim_pair->score();
         $bitscore = $sim_pair->bits();

         # this will not write the description for the sequence (only its name)
         print $sim_pair->query()->gff_string(), "\n";