Bio::Factory::FTLocationFactory.3pm

Langue: en

Version: 2009-03-10 (debian - 07/07/09)

Section: 3 (Bibliothèques de fonctions)

NAME

Bio::Factory::FTLocationFactory - A FeatureTable Location Parser

SYNOPSIS

     # parse a string into a location object
     $loc = Bio::Factory::FTLocationFactory->from_string("join(100..200, 
                                                          400..500");
 
 

DESCRIPTION

Implementation of string-encoded location parsing for the Genbank feature table encoding of locations.

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/wiki/Mailing_lists  - 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 the web:
   http://bugzilla.open-bio.org/
 
 

AUTHOR - Hilmar Lapp

Email hlapp at gmx.net

CONTRIBUTORS

Jason Stajich, jason-at-bioperl-dot-org Chris Fields, cjfields-at-uiuc-dot-edu

APPENDIX

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

new

  Title   : new
  Usage   : my $obj = Bio::Factory::FTLocationFactory->new();
  Function: Builds a new Bio::Factory::FTLocationFactory object 
  Returns : an instance of Bio::Factory::FTLocationFactory
  Args    :
 
 

from_string

  Title   : from_string
  Usage   : $loc = $locfactory->from_string("100..200");
  Function: Parses the given string and returns a Bio::LocationI implementing
            object representing the location encoded by the string.
 
            This implementation parses the Genbank feature table
            encoding of locations.
  Example :
  Returns : A Bio::LocationI implementing object.
  Args    : A string.
 
 

_parse_location

  Title   : _parse_location
  Usage   : $loc = $locfactory->_parse_location( $loc_string)
 
  Function: Parses the given location string and returns a location object 
            with start() and end() and strand() set appropriately.
            Note that this method is private.
  Returns : A Bio::LocationI implementing object or undef on failure
  Args    : location string