- SEE ALSO
- COPYRIGHT AND LICENSE
Bio::MLST::CompareAlleles - Get a list of matching alleles between the sequence and database
Take in an assembly file in Fasta format, and a list of allele files (in multifasta format) and return a list of the alleles and IDs.
use Bio::MLST::CompareAlleles; my $compare_alleles = Bio::MLST::CompareAlleles->new( sequence_filename => 'contigs.fa', allele_filenames => ['abc.tfa','efg.tfa'] ); $compare_alleles->found_sequence_names; $compare_alleles->found_non_matching_sequence_names $compare_alleles->matching_sequences; $compare_alleles->non_matching_sequences
Return a list of the sequence names which match.
Return a list of the sequence names which dont match.
Return a Hash containing the sequnces that match.
Return a Hash containing the sequnces that dont match.
Flag which is set if more than one 100% match is found for a single locus.
Flag which is set if the results contain a novel combination of sequences or a new sequence.
Andrew J. Page <email@example.com>
This software is Copyright (c) 2012 by Wellcome Trust Sanger Institute.
This is free software, licensed under:
The GNU General Public License, Version 3, June 2007