Bio::D...or::orf(3pm)

✨ NAME ✨

Bio::DB::GFF::Aggregator::orf — bestie, it's an aggregator for orf regions 💖

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🌸 SYNOPSIS 🌸

okay so first you gotta pull in the module, like:

use Bio::DB::GFF;

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

and here's the little vibe check of what you're actually working with:

---------------------------
Aggregator method: orf
Main method:       -none-
Sub methods:       ORF
---------------------------

no main method, bestie, she's just out here aggregating 💅

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🦋 DESCRIPTION 🦋

So Bio::DB::GFF::Aggregator::orf was written to work with the "cds" glyph. GFF files. It aggregates raw "ORF" features into "coding" features. Basically it's identical to the "coding" aggregator, except — and this is the whole plot twist — it looks for features of type "ORF" instead of "cds". iykyk 🌈

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💜 method

• Title — method
• Usage — $aggregator->method
• Function — return the method for the composite object
• Returns — the string "orf" ✨
• Args — none
• Status — Public

she's giving "what am I" and the answer is literally just orf, periodt 👑

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🎀 part_names

• Title — part_names
• Usage — $aggregator->part_names
• Function — return the methods for the sub-parts
• Returns — the list "CDS"
• Args — none
• Status — Public

yes bestie, it returns "CDS" — that's what it says, I'm just the messenger 🫶

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💀 BUGS 💀

None reported.

which is honestly iconic of her, zero drama, not one single note 😌✨

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👑 SEE ALSO 👑

go read these next, they're the friend group:

• Bio::DB::GFF
• Bio::DB::GFF::coding
• Bio::DB::GFF::Aggregator
• Bio::Graphics::Glyph::cds

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🌸 AUTHOR 🌸

Lincoln Stein <lstein@cshl.org>.

Copyright (c) 2001 Cold Spring Harbor Laboratory.

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

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and that's the whole page, bestie 🎀 this was documented by the user-contributed Perl documentation crew, version perl v5.30.0, dated 2020-01-13, and it lives at Bio::D...or::orf(3pm) — go forth and aggregate, mwah 💖🦋