Bio::MLST::CDC::Convert - Take in a fasta file of emmST sequences and convert it into an MLST format
version 2.1.1706216
ake in a fasta file of emmST sequences and convert it into an MLST format, producing an allele file, and a profile.
use Bio::MLST::CDC::Convert; my $convert_fasta = Bio::MLST::CDC::Convert->new( species => 'Streptococcus pyogenes emmST', input_file => 't/data/CDC_emmST_partial.tfa', gene_name => 'emmST', base_directory => '/path/to/output/dir' ); $convert_fasta->create_mlst_files();
Create an allele file and a profile, in the MLST directory structure.
Andrew J. Page <ap13@sanger.ac.uk>
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
To install Bio::MLST::Check, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::MLST::Check
CPAN shell
perl -MCPAN -e shell install Bio::MLST::Check
For more information on module installation, please visit the detailed CPAN module installation guide.