CompareAlleles - 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->matching_sequences;
To install Bio::MLST::Types, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::MLST::Types
CPAN shell
perl -MCPAN -e shell install Bio::MLST::Types
For more information on module installation, please visit the detailed CPAN module installation guide.