Bio::Factory::FTLocationFactory

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.

  [email protected]                  - 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 protected] 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 - 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