Bio::D...efgene(3pm)

💖 Bio::DB::GFF::Aggregator::ucsc_refgene 💖

okay bestie, gather round, because this is a whole Perl module page and we're gonna make it make sense. this one lives in the User Contributed Perl Documentation corner of the manual-verse, and it's the UCSC refGene aggregator for Bio::DB::GFF. yes that is a mouthful. yes we're still doing it. 🦋

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✨ NAME ✨

Bio::DB::GFF::Aggregator::ucsc_refgene — the UCSC refGene aggregator, fr fr. that's the whole vibe. it aggregates, it refGenes, it serves. 💅

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🌸 SYNOPSIS 🌸

here's how you actually summon it, bestie:

use Bio::DB::GFF;

# Open the sequence database
my $db      = Bio::DB::GFF->new( -adaptor => 'dbi:mysql',
                                 -dsn     => 'dbi:mysql:elegans42',
                                 -aggregator => ['transcript','clone'],
                               );

-------------------------------------------------
Aggregator method: refgene
Main method:       transcript
Sub methods:       refGene
-------------------------------------------------

so like, the use Bio::DB::GFF; line is non-negotiable, then you open the sequence database with Bio::DB::GFF->new, and you can peep the deets: aggregator method is refgene, main method is transcript, sub methods is refGene. that little dashed box? that's the whole personality of this aggregator laid bare. iconic. 👑

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🎀 DESCRIPTION 🎀

Bio::DB::GFF::Aggregator::transcript

that's it. that's the description. short, sweet, mysterious, main character energy. 💜

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⭐ method ⭐

• Title : method
• Usage : $aggregator->method
• Function: returns the method for the composite object
• Returns : the string "refgene"
• Args : none
• Status : Public

so you call it, it hands you back "refgene", no arguments needed, no drama. it's public, so go off. ✨

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🫶 part_names 🫶

• Title : part_names
• Usage : $aggregator->part_names
• Function: returns the methods for the sub-parts
• Returns : empty list
• Args : none
• Status : Public

and here's the tea: it returns an empty list. nothing. nada. it's giving minimalism. you still call it the same way, no args, it's public, but don't expect it to hand you anything back. 😭

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🦋 main_name 🦋

• Title : main_name
• Usage : $aggregator->main_name
• Function: returns the method for the main component
• Returns : the string "transcript:refGene"
• Args : none
• Status : Public

this one is the moment. it returns "transcript:refGene" — colon and all, do not forget the colon, the colon is load-bearing. no args, public, slay. 💅

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💀 BUGS 💀

None reported.

which, like, no cap, is the most peaceful BUGS section a person can read. we love a clean slate. 🙈

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🌈 SEE ALSO 🌈

go read these next, bestie, they're the whole extended universe:

• Bio::DB::GFF
• Bio::DB::GFF::Aggregator

iykyk. ✨

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👑 AUTHOR 👑

Allen Day <allenday@ucla.edu>.

Copyright (c) 2002 Allen Day, University of California, Los Angeles.

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

shoutout to Allen Day and UCLA for bringing this into the world back in 2002, and to the Perl license for keeping it free and open. 🫶

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and that's the whole page, gorgeous. this was perl v5.30.0, dated 2020-01-13, served up under Bio::D...efgene(3pm) in the User Contributed Perl Documentation section. go aggregate something, you absolute legend. 💖🎀🦋