Skip site navigation (1)Skip section navigation (2)

FreeBSD Manual Pages

  
 
  

home | help
Bio::Seq::SeqFactory(3User Contributed Perl DocumentatiBio::Seq::SeqFactory(3)

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

SYNOPSIS
	   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'	);

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

FEEDBACK
   Mailing Lists
       User feedback is	an integral part of the	evolution of this and other
       Bioperl modules.	Send your comments and suggestions preferably to the
       Bioperl mailing list.  Your participation is much appreciated.

	 bioperl-l@bioperl.org			- General discussion
	 http://bioperl.org/wiki/Mailing_lists	- About	the mailing lists

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

       bioperl-l@bioperl.org

       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.

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

	 https://github.com/bioperl/bioperl-live/issues

AUTHOR - Jason Stajich
       Email jason@bioperl.org

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

   new
	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.

   create
	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
		  objects.
	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

   type
	Title	: type
	Usage	: $obj->type($newval)
	Function:
	Returns	: value	of type
	Args	: newvalue (optional)

perl v5.24.1			  2017-07-08	       Bio::Seq::SeqFactory(3)

NAME | SYNOPSIS | DESCRIPTION | FEEDBACK | AUTHOR - Jason Stajich | APPENDIX

Want to link to this manual page? Use this URL:
<https://www.freebsd.org/cgi/man.cgi?query=Bio::Seq::SeqFactory&sektion=3&manpath=FreeBSD+12.1-RELEASE+and+Ports>

home | help