Provided by: libbio-perl-perl_1.6.901-2_all bug


       Bio::ClusterI - Cluster Interface


           # see the implementations of this interface for details

           my $cluster= $cluster->new(-description=>"POLYUBIQUITIN",
                                      -members    =>[$seq1,$seq2]);
           my @members = $cluster->get_members();
           my @sub_members = $cluster->get_members(-species=>"homo sapiens");


       This interface is the basic structure for a cluster of bioperl objects.  In this case it
       is up to the implementer to check arguments and initialize whatever new object the
       implementing class is designed for.


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AUTHOR - Shawn Hoon



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

Implementation Specific Functions

       These functions are the ones that a specific implementation must define.

         We don't mandate but encourage implementors to support at least the
         following named parameters upon object initialization.

         Argument        Description
         --------        -----------
         -display_id     the display ID or name for the cluster
         -description    the consensus description or name of the cluster
         -members        the array of objects belonging to the family

        Title   : display_id
        Usage   :
        Function: Get the display name or identifier for the cluster
        Returns : a string
        Args    :

        Title   : description
        Usage   : Bio::ClusterI->description("POLYUBIQUITIN")
        Function: get/set for the consensus description of the cluster
        Returns : the description string
        Args    : Optional the description string

        Title   : size
        Usage   : Bio::ClusterI->size();
        Function: get/set for the size of the family,
                  calculated from the number of members
        Returns : the size of the family
        Args    :

        Title   : cluster_score
        Usage   : $cluster ->cluster_score(100);
        Function: get/set for cluster_score which
                  represent the score in which the clustering
                  algorithm assigns to this cluster.
        Returns : a number

        Title   : get_members
        Usage   : Bio::ClusterI->get_members(($seq1, $seq2));
        Function: retrieve the members of the family by some criteria, for
                  example :
                  $cluster->get_members(-species => 'homo sapiens');

                  Will return all members if no criteria are provided.

        Returns : the array of members
        Args    :