Rutger Vos > Bio-Phylo > Bio::Phylo::Taxa::TaxonLinker

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NAME ^

Bio::Phylo::Taxa::TaxonLinker - Superclass for objects that link to taxon objects

SYNOPSIS ^

 use Bio::Phylo::Factory;
 my $fac = Bio::Phylo::Factory->new;

 my $node  = $fac->create_node;
 my $taxon = $fac->create_taxon;

 # just to show who's what
 if ( $node->isa('Bio::Phylo::Taxa::TaxonLinker') ) { 
    $node->set_taxon( $taxon );
 }
 
 # prints 'Bio::Phylo::Taxa::Taxon'
 print ref $node->get_taxon 

DESCRIPTION ^

This module is a superclass for objects that link to Bio::Phylo::Taxa::Taxon objects.

METHODS ^

MUTATORS

set_taxon()

Links the invocant object to a taxon object.

 Type    : Mutator
 Title   : set_taxon
 Usage   : $obj->set_taxon( $taxon );
 Function: Links the invocant object
           to a taxon object.
 Returns : Modified $obj
 Args    : A Bio::Phylo::Taxa::Taxon object.
unset_taxon()

Unlinks the invocant object from any taxon object.

 Type    : Mutator
 Title   : unset_taxon
 Usage   : $obj->unset_taxon();
 Function: Unlinks the invocant object
           from any taxon object.
 Returns : Modified $obj
 Args    : NONE

ACCESSORS

get_taxon()

Retrieves the Bio::Phylo::Taxa::Taxon object linked to the invocant.

 Type    : Accessor
 Title   : get_taxon
 Usage   : my $taxon = $obj->get_taxon;
 Function: Retrieves the Bio::Phylo::Taxa::Taxon
           object linked to the invocant.
 Returns : Bio::Phylo::Taxa::Taxon
 Args    : NONE
 Comments:

SEE ALSO ^

There is a mailing list at https://groups.google.com/forum/#!forum/bio-phylo for any user or developer questions and discussions.

Bio::Phylo::Matrices::Datum

The datum object subclasses Bio::Phylo::Taxa::TaxonLinker.

Bio::Phylo::Forest::Node

The node object subclasses Bio::Phylo::Taxa::TaxonLinker.

Bio::Phylo::Manual

Also see the manual: Bio::Phylo::Manual and http://rutgervos.blogspot.com.

CITATION ^

If you use Bio::Phylo in published research, please cite it:

Rutger A Vos, Jason Caravas, Klaas Hartmann, Mark A Jensen and Chase Miller, 2011. Bio::Phylo - phyloinformatic analysis using Perl. BMC Bioinformatics 12:63. http://dx.doi.org/10.1186/1471-2105-12-63

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