NAME

Bio::MLST::NormaliseFasta - Take in a Fasta file, check for invalid characters and build a corrected file if needed.

VERSION

version 2.1.1706216

SYNOPSIS

Take in a Fasta file, check for invalid characters and build a corrected file if needed. This is needed for NCBI makeblastdb which doesnt like the pipe character in the sequence name.

   use Bio::MLST::NormaliseFasta;
   
   my $output_fasta = Bio::MLST::NormaliseFasta->new(
     fasta_filename     => 'Filename.fasta'
   
   );
   $output_fasta->processed_fasta_filename();

METHODS

processed_fasta_filename

Output a temporary fasta file thats been cleaned up.

AUTHOR

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

COPYRIGHT AND LICENSE

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