Ewan Birney

NAME

Bio::MapIO::mapmaker - A Mapmaker Map reader

SYNOPSIS

# do not use this object directly it is accessed through the Bio::MapIO system

    use Bio::MapIO;
    my $mapio = new Bio::MapIO(-format => "mapmaker",
                               -file   => "mapfile.map");
    while( my $map = $mapio->next_map ) { 
        # get each map
        foreach my $marker ( $map->each_element ) {
            # loop through the markers associated with the map
        }
    }

DESCRIPTION

This object contains code for parsing and processing Mapmaker output and creating Bio::Map::MapI objects from it.

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

Describe contact details here

CONTRIBUTORS

Additional contributors names and emails here

APPENDIX

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

next_map

 Title   : next_tree
 Usage   : my $map = $factory->next_map;
 Function: Get a map from the factory
 Returns : L<Bio::Map::MapI>
 Args    : none

write_map

 Title   : write_tree
 Usage   : $factory->write_map($map);
 Function: Write a map out through the factory
 Returns : none
 Args    : Bio::Map::MapI