view release on metacpan or  search on metacpan

Bio/Cluster/FamilyI.pm  view on Meta::CPAN

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.

=head2 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://github.com/bioperl/bioperl-live/issues

=head1 AUTHOR - Shawn Hoon

Email shawnh@fugu-sg.org

=head1 APPENDIX

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

=cut


package Bio::Cluster::FamilyI;
use strict;


use base qw(Bio::ClusterI);

=head2 new

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

 Arguments          Description
 ---------          -----------
 -family_id         the name of the family
 -description       the consensus description of the family
 -annotation_score  the confidence by which the consensus description is 
                    representative of the family
 -members           the members belonging to the family
 -alignment         the multiple alignment of the members

=cut


=head2 family_id

 Title   : family_id
 Usage   : Bio::Cluster::FamilyI->family_id("znfp");
 Function: get/set for the family id 
 Returns : the family id 
 Args    : the family id

=cut

sub family_id{
    shift->throw_not_implemented();
}

=head2 family_score

 Title   : family_score
 Usage   : Bio::Cluster::FamilyI->family_score(95);
 Function: get/set for the score of algorithm used to generate
           the family if present
 Returns : the score
 Args    : the score

=cut

sub family_score {
    shift->throw_not_implemented();
}


=head1 Methods inherited from L<Bio::ClusterI>

=cut

=head2 display_id

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

=cut

=head2 get_members

 Title   : get_members
 Usage   : Bio::Cluster::FamilyI->get_members();
 Function: get the members of the family
 Returns : the array of members
 Args    : the array of members

=cut

=head2 description

 Title   : description
 Usage   : Bio::Cluster::FamilyI->description("Zinc Finger Protein");
 Function: get/set for the description of the family
 Returns : the description 
 Args    : the description

=cut


=head2 size

 Title   : size
 Usage   : Bio::Cluster::FamilyI->size();
 Function: get/set for the description of the family
 Returns : size 
 Args    : 

=cut

=head2 cluster_score

 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

=cut

1;