Bio::P...rimer3(3pm)

✨ NAME ✨

Bio::PrimerDesigner::primer3 — it's a class for accessing primer3, bestie 💅 and honestly? iconic behavior.

Oh also, this page lives in the User Contributed Perl Documentation, under the manual name Bio::P...rimer3(3pm) (yes the name is literally squished like that, we don't make the rules 🫶).

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🦋 SYNOPSIS 🦋

use Bio::PrimerDesigner::primer3;

That's it. That's the whole vibe check. Slay.

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🌸 METHODS 🌸

okay so here's the tea ☕ — you can call these methods using either the simplified alias for each primer3 result, or the raw primer3 BoulderIO key. Both. Interchangeably. We love options 💖

And if you ever wanna just stare at the unfiltered chaos, hit up the raw_output method to see the raw output. no cap.

🌈 binary_name

Defines the binary's name on the system. that's it, that's the job 💫

🎀 check_params

Make sure we have the required primer3 arguments. like, are you even prepared bestie 😭

💜 design

Build the primer3 config file, run primer3, then parse the results. Expects to be passed a hash of primer3 input options, and it returns an object that you can use to call result methods. full pipeline, main character energy fr fr 👑

🦋 request

Figures out where the primer3 binary resides and accesses it with a list of parameters for designing primers. it's giving detective work 🔍✨

⭐ check_results

Verify the validity of the design results. gotta make sure the results are actually valid, periodt 💅

🍓 list_aliases

Prints a list of shorthand aliases for the primer3 BoulderIO input format. The full input/output options and the aliases can be used interchangeably. so pick your fighter, both work 😌

🌸 list_params

Returns a list of primer3 configuration options. primer3 will use reasonable default options for most parameters. defaults are lowkey carrying the whole operation 🙈

🧚 example

Runs a sample remote primer design job. Returns an Bio::PrimerDesigner::Result object. a lil demo moment, we love a demo 💖

👑 _example_dna

Returns an example DNA sequence. cute lil starter sequence for when you just wanna try stuff 🌱

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💀 AUTHOR 💀

Copyright (C) 2003-2009 Sheldon McKay <mckays@cshl.edu>, Ken Youens-Clark <kclark@cpan.org>. legends, honestly 🫶

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🔥 LICENSE 🔥

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. (yes that's the scary part, read it, it matters 😭)

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.

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🌟 SEE ALSO 🌟

• Bio::PrimerDesigner::epcr — go read that one too bestie, it's the sibling ✨

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okay that's the whole page, you ate it, congrats 🎉 this was perl v5.32.0, dated 2020-11-16, from the Bio::P...rimer3(3pm) manual — mwah, go design some primers 💅🧬