Bio::Tradis::RemoveTags(3pm)

Bio::Tradis::RemoveTags3pm

Remove tags from seqs a fastq file

Usage

Reads in a fastq file with tradis tags already attached to the start of the sequence Removes tags from the sequence and quality strings Outputs a file *.rmtag.fastq unless an out file is specified

   use Bio::Tradis::RemoveTags;
   
   my $pipeline = Bio::Tradis::RemoveTags->new(fastqfile => 'abc', tag => 'abc');
   $pipeline->remove_tags();

Version

version 1.4.5

Parameters

Required

•

"fastqfile" - path to/name of file to filter

•

"tag" - TraDIS tag to remove

Optional

•

"mismatch" - number of mismatches to allow when removing the tag. Default = 0

•

"outfile" - defaults to "file.rmtag.fastq" for and input file named "file.fastq"

Methods

"remove_tags" - output all reads with the tags removed to "outfile"

Releases

3 releases since Debian 11 (Bullseye); the text changed 1 time.

  1. 11–12
  2. 13

Author

Carla Cummins <[email protected]>

From bio-tradis 1.4.5+dfsg2-2 in Debian 13 (Trixie). Parsed by carta from the page's man source.