Provided by: libbio-perl-perl_1.6.901-2_all bug

NAME

       Bio::FeatureIO::vecscreen_simple - read/write features from NCBI vecscreen -f 3 output

SYNOPSIS

           # read features
           my $fin = Bio::FeatureIO->new(-file=>'vecscreen.out',
                                         -format=>'vecscreen_simple');
           my @vec_regions;
           while (my $f = $fin->next_feature) {
             push @vec_regions, $f;
           }

           # write features NOT IMPLEMENTED

DESCRIPTION

       vecscreen is a system for quickly identifying segments of a nucleic acid sequence that may
       be of vector origin.  NCBI developed vecscreen to minimize the incidence and impact of
       vector contamination in public sequence databases.  GenBank Annotation Staff use vecscreen
       to verify that sequences submitted for inclusion in the database are free from
       contaminating vector sequence. Any sequence can be screened for vector contamination using
       vecscreen.

       This module provides parsing for vecscreen '-f 3' output, described in the vecscreen
       documentation as 'Text list, no alignments'

FEEDBACK

   Mailing Lists
       User feedback is an integral part of the evolution of this and other Bioperl modules. Send
       your comments and suggestions preferably to the Bioperl mailing list.  Your participation
       is much appreciated.

        bioperl-l@bioperl.org                  - General discussion
        http://bioperl.org/wiki/Mailing_lists  - About the mailing lists

   Support
       Please direct usage questions or support issues to the mailing list:

       bioperl-l@bioperl.org

       rather than to the module maintainer directly. Many experienced and reponsive experts will
       be able look at the problem and quickly address it. Please include a thorough description
       of the problem with code and data examples if at all possible.

   Reporting Bugs
       Report bugs to the Bioperl bug tracking system to help us keep track of the bugs and their
       resolution. Bug reports can be submitted via the web:

        https://redmine.open-bio.org/projects/bioperl/

AUTHOR - Robert Buels

       Email rmb32 AT cornell.edu

CONTRIBUTORS

       Based on ptt.pm by Torsten Seeman

APPENDIX

       The rest of the documentation details each of the object methods.  Internal methods are
       usually preceded with a _

   _initialize
       Title   : _initialize Function: Reading? parses the header of the input
                 Writing?

   next_feature
         Title   : next_feature
         Usage   : $io->next_feature()
         Function: read the next feature from the vecscreen output file
         Args    : none
         Returns : Bio::SeqFeatureI object

   write_feature (NOT IMPLEMENTED)
         Title   : write_feature
         Usage   : $io->write_feature($feature)
         Function: write a Bio::SeqFeatureI object in vecscreen -f 3 format
         Example :
         Args    : Bio::SeqFeatureI object
         Returns :