Bio::MLST::NormaliseFasta - Take in a Fasta file, check for invalid characters and build a corrected file if needed.
version 2.1.1706216
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();
Output a temporary fasta file thats been cleaned up.
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.