Ewan Birney

NAME

Bio::Map::MappableI - An object that can be placed in a map

SYNOPSIS

    # get a Bio::Map::MappableI somehow
    my $position = $element->map_position();
    # these methods will be important for building sorted lists
    if( $position->equals($p2) ) {
        # do something
    } elsif( $position->less_tha($p2) ) {} 
      elsif( $position->greater_than($p2) ) { }    

DESCRIPTION

This object handles the generic notion of an element placed on a (linear) Map. Elements can have multiple positions in a map such as is the case of Restriction enzyme cut sites on a sequence map. For exact information about an element's position in a map one must query the associate PositionI object which is accessible through the position() method.

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/MailList.shtml  - About the mailing lists

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 email or the web:

  bioperl-bugs@bioperl.org
  http://bioperl.org/bioperl-bugs/

AUTHOR - Jason Stajich

Email jason@bioperl.org

CONTRIBUTORS

Heikki Lehvaslaiho heikki@ebi.ac.uk Lincoln Stein lstein@cshl.org

APPENDIX

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

position

 Title   : position
 Usage   : my $position = $mappable->position(); 
 Function: Get/Set the Bio::Map::PositionI for a mappable element
 Returns : Bio::Map::PositionI
 Args    : (optional) Bio::Map::PositionI

equals

 Title   : equals
 Usage   : if( $mappable->equals($mapable2)) ...
 Function: Test if a position is equal to another position
 Returns : boolean
 Args    : Bio::Map::MappableI or Bio::Map::PositionI

less_than

 Title   : less_than
 Usage   : if( $mappable->less_than($m2) ) ...
 Function: Tests if a position is less than another position
 Returns : boolean
 Args    : Bio::Map::MappableI or Bio::Map::PositionI

greater_than

 Title   : greater_than
 Usage   : if( $mappable->greater_than($m2) ) ...
 Function: Tests if position is greater than another position
 Returns : boolean
 Args    : Bio::Map::MappableI or Bio::Map::PositionI