Bio::Roary::Output::CoreGeneAlignmentCoordinatesEMBL - Create an embl file for the header with locations

Author

       Andrew J. Page <ap13@sanger.ac.uk>

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

perl v5.40.0                                       2024-12-02             Bio::Roary::Out...CoordinatesEMBL(3pm)

Name

       Bio::Roary::Output::CoreGeneAlignmentCoordinatesEMBL - Create an embl file for the header with locations
       of where genes are in the multifasta alignment of core genes

Synopsis

       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;