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bio::factory::analysisi(3pm) [debian man page]

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

NAME

       Bio::Factory::AnalysisI - An interface to analysis tool factory

SYNOPSIS

       This is an interface module - you do not instantiate it.  Use Bio::Tools::Run::AnalysisFactory module:

	 use Bio::Tools::Run::AnalysisFactory;
	 my $list = Bio::Tools::Run::AnalysisFactory->new->available_analyses;

DESCRIPTION

       This interface contains all public methods for showing available analyses and for creating objects representing them.

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

       Martin Senger (martin.senger@gmail.com)

COPYRIGHT

       Copyright (c) 2003, Martin Senger and EMBL-EBI.	All Rights Reserved.

       This module is free software; you can redistribute it and/or modify it under the same terms as Perl itself.

DISCLAIMER

       This software is provided "as is" without warranty of any kind.

SEE ALSO

       o   http://www.ebi.ac.uk/Tools/webservices/soaplab/guide

APPENDIX

       This is actually the main documentation...

       If you try to call any of these methods directly on this "Bio::Factory::AnalysisI" object you will get a not implemented error message. You
       need to call them on a "Bio::Tools::Run::AnalysisFactory" object instead.

   available_categories
	Usage	: $factory->available_categories;
	Returns : an array reference with the names of
		  available categories
	Args	: none

       The analysis tools may be grouped into categories by their functional similarity, or by the similar data types they deal with. This method
       shows all available such categories.

   available_analyses
	Usage	: $factory->available_analyses;
		  $factory->available_analyses ($category);
	Returns : an array reference with the names of
		  all available analyses, or the analyses
		  available in the given '$category'
	Args	: none || category_name

       Show available analyses. Their names usually consist of category analysis names, separated by "::".

   create_analysis
	Usage	: $factory->create_analysis ($name);
	Returns : a Bio::Tools::Run::Analyis object
	Args	: analysis name

       A real factory method creating an analysis object. The created object gets all access and location information from the factory object.

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

Check Out this Related Man Page

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

NAME

       Bio::Factory::LocationFactoryI - A factory interface for generating locations from a string

SYNOPSIS

	# Do not use directly, see Bio::Factory::LocationFactory for example
	use Bio::Factory::FTLocationFactory;
	my $locfact = Bio::Factory::FTLocationFactory->new();
	my $location = $locfact->from_string("1..200");
	print $location->start(), " ", $location->end(), " ", $location->strand,"
";

DESCRIPTION

       An interface for Location Factories which generate Bio::LocationI objects from a string.

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 _

   from_string
	Title	: from_string
	Usage	: $loc = $locfactory->from_string("100..200");
	Function: Parses the given string and returns a Bio::LocationI implementing
		  object representing the location encoded by the string.

		  Different implementations may support different encodings. An
		  example of a commonly used encoding is the Genbank feature table
		  encoding of locations.
	Example :
	Returns : A Bio::LocationI implementing object.
	Args	: A string.

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