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Bio::Seq::SeqFactory(3pm) User Contributed Perl Documentation Bio::Seq::SeqFactory(3pm)


Bio::Seq::SeqFactory - Instantiation of generic Bio::PrimarySeqI (or derived) objects through a factory


    use Bio::Seq::SeqFactory;
    my $factory = Bio::Seq::SeqFactory->new();
    my $primaryseq = $factory->create( -seq => 'WYRAVLC',
                                       -id  => 'name'     );
    # Create Bio::Seq instead of Bio::PrimarySeq objects:
    my $factory = Bio::Seq::SeqFactory->new( -type => 'Bio::Seq' );


This object will build Bio::PrimarySeqI and Bio::SeqI objects generically.


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AUTHOR - Jason Stajich



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


 Title   : new
 Usage   : my $obj = Bio::Seq::SeqFactory->new();
 Function: Builds a new Bio::Seq::SeqFactory object 
 Returns : Bio::Seq::SeqFactory
 Args    : -type => string, name of a PrimarySeqI derived class
                    This is optional. Default=Bio::PrimarySeq.


 Title   : create
 Usage   : my $seq = $seqbuilder->create(-seq => 'CAGT', -id => 'name');
 Function: Instantiates new Bio::SeqI (or one of its child classes)
           This object allows us to genericize the instantiation of sequence
 Returns : Bio::PrimarySeq object (default)
           The return type is configurable using new(-type =>"...").
 Args    : initialization parameters specific to the type of sequence
           object we want.  Typically 
           -seq        => $str,
           -display_id => $name


 Title   : type
 Usage   : $obj->type($newval)
 Returns : value of type
 Args    : newvalue (optional)
2021-08-15 perl v5.32.1