Christopher Fields > Bio-Tools-Primer3Redux-0.09 > Bio::Tools::Primer3Redux::PrimerPair

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Module Version: 0.09   Source  

NAME ^

Bio::Tools::Primer3Redux::PrimerPair

SYNOPSIS ^

  # get the primer pair from the Bio::Tools::Primer3Redux::Result
  my $pair = $result->next_primer_pair;

  # grab left/right primers
  my ($fp, $rp) = ($pair->forward_primer, $pair->reverse_primer);

DESCRIPTION ^

Bio::Tools::Primer3Redux::PrimerPair acts as a simple SeqFeature that bundles primer pair data together into one object. This object can be used to retrieve the amplicon sequence, the forward/reversion (left/right) primers, and any internal oligos. Furthermore, any primer information relative to the product is included as SeqFeature tags.

NAME ^

Bio::Tools::Primer3Redux::PrimerPair - Simple Decorator of a Bio::SeqFeature::Generic with convenience methods for retrieving left and right primers, internal oligos, and any amplicon-related information

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 - Chris Fields ^

  Email cjfields at bioperl dot 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 _

left_primer

 Title    : left_primer
 Note     : Alias of forward_primer()

forward_primer

 Title    : forward_primer
 Usage    : $obj->forward_primer
 Function : returns the forward (left) primer
 Returns  : Bio::Tools::Primer3Redux::Primer
 Args     : Optional Bio::Tools::Primer3Redux::Primer

right_primer

 Title    : right_primer
 Note     : alias of reverse_primer()

reverse_primer

 Title    : reverse_primer
 Usage    : $obj->reverse_primer
 Function : returns the reverse (right) primer
 Returns  : Bio::Tools::Primer3Redux::Primer
 Args     : Optional Bio::Tools::Primer3Redux::Primer

internal_oligo

 Title    : internal_oligo
 Usage    : $obj->internal_oligo
 Function : returns the internal oligo (if present)
 Returns  : Bio::Tools::Primer3Redux::Primer
 Args     : Optional Bio::Tools::Primer3Redux::Primer

AUTHOR ^

cjfields <cjfields@bioperl.org>

COPYRIGHT AND LICENSE ^

This software is copyright (c) 2011 by Chris Fields.

This is free software; you can redistribute it and/or modify it under the same terms as the Perl 5 programming language system itself.

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