bio::seq::seqfastaspeedfactory(3pm) [debian man page]

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

NAME

       Bio::Seq::SeqFastaSpeedFactory - Instantiates a new Bio::PrimarySeqI (or derived class) through a factory

SYNOPSIS

	   use Bio::Seq::SeqFastaSpeedFactory;
	   my $factory = Bio::Seq::SeqFastaSpeedFactory->new();
	   my $seq = $factory->create(-seq => 'WYRAVLC',
				      -id  => 'name');

	   # If you want the factory to create Bio::Seq objects instead
	   # of the default Bio::PrimarySeq objects, use the -type parameter:

	   my $factory = Bio::Seq::SeqFastaSpeedFactory->new(-type => 'Bio::Seq');

DESCRIPTION

       This object will build Bio::Seq 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://redmine.open-bio.org/projects/bioperl/

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::SeqFastaSpeedFactory->new();
	Function: Builds a new Bio::Seq::SeqFastaSpeedFactory object
	Returns : Bio::Seq::SeqFastaSpeedFactory
	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 a new Bio::Seq object, correctly built but very
		  fast, knowing stuff about Bio::PrimarySeq and Bio::Seq
	Returns : Bio::Seq

	Args	: initialization parameters specific to the type of sequence
		  object we want.  Typically
		  -seq	      => $str,
		  -id	      => $name

perl v5.14.2							    2012-03-02				       Bio::Seq::SeqFastaSpeedFactory(3pm)

Check Out this Related Man Page

Bio::Factory::SequenceFactoryI(3pm)			User Contributed Perl Documentation		       Bio::Factory::SequenceFactoryI(3pm)

NAME

       Bio::Factory::SequenceFactoryI - This interface allows for generic building of sequences in factories which create sequences (like SeqIO)

SYNOPSIS

       # do not use this object directly it is an interface # get a Bio::Factory::SequenceFactoryI object like

	   use Bio::Seq::SeqFactory;
	   my $seqbuilder = Bio::Seq::SeqFactory->new('-type' => 'Bio::PrimarySeq');

	   my $seq = $seqbuilder->create(-seq => 'ACTGAT',
					 -display_id => 'exampleseq');

	   print "seq is a ", ref($seq), "
";

DESCRIPTION

       A generic way to build Sequence objects via a pluggable factory.  This reduces the amount of code that looks like

	 if( $type  eq 'Bio::PrimarySeq' ) { ... }
	 elsif( $type eq 'Bio::Seq::RichSeq' ) { ... }

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://redmine.open-bio.org/projects/bioperl/

AUTHOR - Jason Stajich
       Email jason-at-bioperl.org

APPENDIX

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

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

perl v5.14.2							    2012-03-02				       Bio::Factory::SequenceFactoryI(3pm)

Linux and UNIX Man Pages

bio::seq::seqfastaspeedfactory(3pm) [debian man page]

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