NAME

       bp_oligo_count - oligo count and frequency

SYNOPSIS

         Usage:  bp_oligo_count [-h/--help] [-l/--length OLIGOLENGTH]
                 [-f/--format SEQFORMAT] [-i/--in/-s/--sequence SEQFILE]
                 [-o/--out OUTFILE]

DESCRIPTION

       This scripts counts occurrence and frequency for all oligonucleotides of given length.

       It can be used to determine what primers are useful for frequent priming of nucleic acid
       for random labeling.

       Note that this script could be run by utilizing the compseq program which is part of
       EMBOSS.

OPTIONS

       The default sequence format is fasta. If no outfile is given, the results will be printed
       to standard out. All other options can entered interactively.

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

   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://github.com/bioperl/bioperl-live/issues

AUTHOR - Charles C. Kim

       Email cckim@stanford.edu

HISTORY

       Written July 2, 2001

       Submitted to bioperl scripts project 2001/08/06

       >> 100 x speed optimization by Heikki Lehvaslaiho