Bio::R...esEMBL(3pm)

💖 NAME 💖

Bio::R...esEMBL — bestie, it makes an embl file for the header, and that header has the locations of where all the genes sit inside the multifasta alignment of core genes. iconic honestly ✨

(also the full package name is Bio::Roary::Output::CoreGeneAlignmentCoordinatesEMBL — she's a long one but we love her 🫶)

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🌸 VERSION 🌸

version 3.13.0 💅

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✨ SYNOPSIS ✨

okay so literally what it says on the tin: create an embl file for the header with locations of where genes are in the multifasta alignment of core genes 🦋

use Bio::Roary::Output::CoreGeneAlignmentCoordinatesEMBL;

my $obj = Bio::Roary::Output::CoreGeneAlignmentCoordinatesEMBL->new(
     output_filename => 'core_alignment_header.embl',
     multifasta_files => [
         't/data/multifasta_files/1.aln', 't/data/multifasta_files/outof_order.aln',
         't/data/multifasta_files/2.aln', 't/data/multifasta_files/3.aln'
     ],
     gene_lengths => {
         't/data/multifasta_files/1.aln'           => 1,
         't/data/multifasta_files/outof_order.aln' => 10,
         't/data/multifasta_files/2.aln'           => 100,
         't/data/multifasta_files/3.aln'           => 1000
     },
);
$obj->create_file;

like. look at that hash of gene_lengths fr fr, 1, 10, 100, 1000, the way that it's giving incrementing by powers of ten 😭 so satisfying. no cap. 🎀

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👑 AUTHOR 👑

Andrew J. Page <ap13@sanger.ac.uk> 💜

the main character who wrote this, respect her 🫶

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🍓 COPYRIGHT AND LICENSE 🍓

This software is Copyright (c) 2013 by Wellcome Trust Sanger Institute. ⭐

This is free software, licensed under:

The GNU General Public License, Version 3, June 2007

free software bestie!! but read the license, it's not a "do whatever" situation, it's a GPLv3 situation 🌈

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and that's the whole page 💖 go forth and embl 🦋

this page came from perl v5.30.0, dated 2019-11-08, under the name Bio::R...esEMBL(3pm) — mwah, bye bestie, slay the alignment 💅✨