Provided by: libbio-primerdesigner-perl_0.07-5_all
Bio::PrimerDesigner::primer3 - An class for accessing primer3
Methods are called using the simplifed alias for each primer3 result or the raw primer3 BoulderIO key. Use the raw_output method to view the raw output. binary_name Defines the binary's name on the system. check_params Make sure we have required primer3 arguments. design Build the primer3 config file, run primer3, then parse the results. Expects to be passed a hash of primer3 input options. Returns an object that can be used to call result methods. request Figures out where the primer3 binary resides and accesses it with a list of parameters for designing primers. check_results Verify the validity of the design results. list_aliases Prints a list of shorthand aliases for the primer3 BoulderIO input format. The full input/ouput options and the aliases can be used interchangeably. list_params Returns a list of primer3 configuration options. primer3 will use reasonable default options for most parameters. example Runs a sample remote primer design job. Returns an Bio::PrimerDesigner::Result object. _example_dna Returns an example DNA sequence.
Copyright (C) 2003-2009 Sheldon McKay <email@example.com>, Ken Youens-Clark <firstname.lastname@example.org>.
This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; version 3 or any later version. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with this program; if not, write to the Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.