.. automodule:: ngsfilter

   :py:mod:`ngsfilter` specific options
   --------------------------------------   

   .. cmdoption::  -t, --tag-list   
   
                   Used to specify the file containing the samples description (with tags, primers, sample names,...) 

   .. cmdoption::  -u, --unidentified  
   
                   Filename used to store the sequences unassigned to any sample

   .. cmdoption::  -e, --error  
   
                   Used to specify the number of errors allowed for matching primers [default = 2]


   .. include:: ../optionsSet/inputformat.txt

   .. include:: ../optionsSet/outputformat.txt

   .. include:: ../optionsSet/defaultoptions.txt


