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bio::cluster::clusterfactory(3pm) [debian man page]

Bio::Cluster::ClusterFactory(3pm)			User Contributed Perl Documentation			 Bio::Cluster::ClusterFactory(3pm)

NAME

       Bio::Cluster::ClusterFactory - Instantiates a new Bio::ClusterI (or derived class) through a factory

SYNOPSIS

	   use Bio::Cluster::ClusterFactory;
	   # if you don't provide a default type, the factory will try
	   # some guesswork based on display_id and namespace
	   my $factory = Bio::Cluster::ClusterFactory->new(-type => 'Bio::Cluster::UniGene');
	   my $clu = $factory->create_object(-description => 'NAT',
					     -display_id  => 'Hs.2');

DESCRIPTION

       This object will build Bio::ClusterI 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 - Hilmar Lapp
       Email hlapp at gmx.net

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::Cluster::ClusterFactory->new();
	Function: Builds a new Bio::Cluster::ClusterFactory object
	Returns : Bio::Cluster::ClusterFactory
	Args	: -type => string, name of a ClusterI derived class.
			   If not provided, the factory will have to guess
			   from ID and namespace, which may or may not be
			   successful.

   create_object
	Title	: create_object
	Usage	: my $seq = $factory->create_object(<named parameters>);
	Function: Instantiates new Bio::ClusterI (or one of its child classes)

		  This object allows us to genericize the instantiation of
		  cluster objects.

	Returns : L<Bio::ClusterI> compliant object
		  The return type is configurable using new(-type =>"...").
	Args	: initialization parameters specific to the type of cluster
		  object we want.  Typically
		  -display_id  => $name
		  -description => description of the cluster
		  -members     => arrayref, members of the cluster

   _guess_type
	Title	: _guess_type
	Usage	:
	Function: Guesses the right type of L<Bio::ClusterI> implementation
		  based on initialization parameters for the prospective
		  object.
	Example :
	Returns : the type (a string, the module name)
	Args	: initialization parameters to be passed to the prospective
		  cluster object

perl v5.14.2							    2012-03-02					 Bio::Cluster::ClusterFactory(3pm)

Check Out this Related Man Page

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

NAME

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

SYNOPSIS

	   use Bio::Seq::SeqFactory;
	   my $factory = Bio::Seq::SeqFactory->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::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://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::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 v5.14.2							    2012-03-02						 Bio::Seq::SeqFactory(3pm)
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