NAME

       Bio::Tradis::FilterTags - Filter tags in a fastq file

VERSION

       version 1.4.5

SYNOPSIS

       Reads in a fastq file with tradis tags already attached to the start of the sequence
       Filters reads that contain the provided tag Outputs a file *.tag.fastq unless an
       alternative outfile name is specified

          use Bio::Tradis::FilterTags;

          my $pipeline = Bio::Tradis::FilterTags->new(fastqfile => 'abc', tag => 'abc');
          $pipeline->filter_tags();

PARAMETERS

   Required
       ·   "fastqfile" - path to/name of file to filter. This may be a gzipped fastq file, in
           which case a temporary unzipped version is used and removed on completion.

       ·   "tag" - TraDIS tag to match

   Optional
       ·   "mismatch" - number of mismatches to allow when matching the tag. Default = 0

       ·   "outfile" - output file name. Defaults to "file.tag.fastq" for an input file named
           "file.fastq"

METHODS

       "filter_tags" - outputs all reads containing the provided tag to "outfile"

AUTHOR

       Carla Cummins <path-help@sanger.ac.uk>

COPYRIGHT AND LICENSE

       This software is Copyright (c) 2013 by Wellcome Trust Sanger Institute.

       This is free software, licensed under:

         The GNU General Public License, Version 3, June 2007