Bio::MapIO(3) A Map Factory object


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


This is the Factory object for reading Maps from a data stream or file.


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Please direct usage questions or support issues to the mailing list:

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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.

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 the web:

AUTHOR - Jason Stajich

Email [email protected]


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


 Title   : new
 Usage   : my $obj = Bio::MapIO->new();
 Function: Builds a new Bio::MapIO object 
 Returns : Bio::MapIO
 Args    :


 Title   : format
 Usage   : $format = $stream->format()
 Function: Get the map format
 Returns : map format
 Args    : none

Bio::Factory::MapFactoryI methods


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


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


 Title   : attach_EventHandler
 Usage   : $parser->attatch_EventHandler($handler)
 Function: Adds an event handler to listen for events
 Returns : none
 Args    : L<Bio::Event::EventHandlerI>


 Title   : _eventHandler
 Usage   : private
 Function: Get the EventHandler
 Returns : L<Bio::Event::EventHandlerI>
 Args    : none


 Title   : _load_format_module
 Usage   : *INTERNAL MapIO stuff*
 Function: Loads up (like use) a module at run time on demand
 Example :
 Returns :
 Args    :


 Title   : _guess_format
 Usage   : $obj->_guess_format($filename)
 Example :
 Returns : guessed format of filename (lower case)
 Args    :