Ewan Birney


Bio::Map::Position - A single position of a Marker in a Map


    use Bio::Map::Position;
    my $position = new Bio::Map::Position(-map => $map, 
                                          -marker => $marker
                                          -value => 100


This object is an implementation of the PositionI interface that handles the specific values of a position. This allows an element (e.g. Marker) to have multiple positions within a map and still be treated as a single entity.

This does not directly handle the concept of a relative map in which no known exact positions exist but markers are just ordered relative to one another - in that case arbitrary values must be assigned for position values.

No units are assumed here - units are handled by context of which Map a position is placed in or the subclass of this Position.


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AUTHOR - Jason Stajich

Email jason@bioperl.org

Describe contact details here


Lincoln Stein, lstein@cshl.org Heikki Lehvaslaiho, heikki@ebi.ac.uk Chad Matsalla, bioinformatics1@dieselwurks.com


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


 Title   : new
 Usage   : my $obj = new Bio::Map::Position();
 Function: Builds a new Bio::Map::Position object 
 Returns : Bio::Map::Position
 Args    : -map     a <Bio::Map::MapI> object
           -marker  a <Bio::Map::MarkerI> object
           -value   string or number


 Title   : map
 Usage   : my $id = map->$map;
 Function: Get/Set the map the position is in.
 Returns : L<Bio::Map::MapI>
 Args    : [optional] new L<Bio::Map::MapI>


 Title   : marker
 Usage   : my $id = marker->$marker;
 Function: Get/Set the marker the position is in.
 Returns : L<Bio::Map::MarkerI>
 Args    : [optional] new L<Bio::Map::MarkerI>


 Title   : value
 Usage   : my $pos = $position->value;
 Function: Get/Set the value for this postion
 Returns : scalar, value
 Args    : [optional] new value to set


 Title   : numeric
 Usage   : my $num = $position->numeric;
 Function: Read-only method that is guarantied to return a numeric 
           representation for this position. 
 Returns : numeric (int or real) 
 Args    : none