Provided by: libbio-perl-perl_1.7.2-2_all
Bio::Map::CytoMarker - An object representing a marker.
$o_usat = Bio::Map::CytoMarker->new(-name=>'Chad Super Marker 2', -position => $pos);
This object handles markers with a position in a cytogenetic map known. This marker will have a name and a position.
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. firstname.lastname@example.org - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists Support Please direct usage questions or support issues to the mailing list: email@example.com 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 via the web: https://github.com/bioperl/bioperl-live/issues
AUTHOR - Heikki Lehvaslaiho
Chad Matsalla firstname.lastname@example.org Lincoln Stein email@example.com Jason Stajich firstname.lastname@example.org Sendu Bala email@example.com
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _ Bio::Map::MarkerI methods get_position_object Title : get_position_class Usage : my $position = $marker->get_position_object(); Function: To get an object of the default Position class for this Marker. Subclasses should redefine this method. The Position returned needs to be a L<Bio::Map::PositionI> with -element set to self. Returns : L<Bio::Map::PositionI> Args : none for an 'empty' PositionI object, optionally Bio::Map::MapI and value string to set the Position's -map and -value attributes. Comparison methods The numeric values for cutogeneic loctions go from the p tip of chromosome 1, down to the q tip and similarly throgh consecutive chromosomes, through X and end the the q tip of X. See Bio::Map::CytoPosition::cytorange for more details. New methods get_chr Title : get_chr Usage : my $mychr = $marker->get_chr(); Function: Read only method for the chromosome string of the location. A shortcut to $marker->position->chr(). Returns : chromosome value Args : [optional] new chromosome value