debian man page for bio::factory::treefactoryi

Query: bio::factory::treefactoryi

OS: debian

Section: 3pm

Format: Original Unix Latex Style Formatted with HTML and a Horizontal Scroll Bar

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

NAME
Bio::Factory::TreeFactoryI - Factory Interface for getting and writing trees from/to a data stream
SYNOPSIS
# get a $factory from somewhere Bio::TreeIO likely my $treeio = Bio::TreeIO->new(-format => 'newick', #this is phylip/newick format -file => 'file.tre'); my $treeout = Bio::TreeIO->new(-format => 'nexus', -file => ">file.nexus"); # convert tree formats from newick/phylip to nexus while(my $tree = $treeio->next_tree) { $treeout->write_tree($tree); }
DESCRIPTION
This interface describes the minimal functions needed to get and write trees from a data stream. It is implemented by the Bio::TreeIO factory.
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 _ next_tree Title : next_tree Usage : my $tree = $factory->next_tree; Function: Get a tree from the factory Returns : L<Bio::Tree::TreeI> Args : none write_tree Title : write_tree Usage : $treeio->write_tree($tree); Function: Writes a tree onto the stream Returns : none Args : L<Bio::Tree::TreeI> perl v5.14.2 2012-03-02 Bio::Factory::TreeFactoryI(3pm)
Related Man Pages
bio::factory::locationfactoryi(3pm) - debian
bio::factory::mapfactoryi(3pm) - debian
bio::factory::treefactoryi(3pm) - debian
bio::treeio::cluster(3pm) - debian
bio::treeio::nexml(3pm) - debian
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