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Manual Reference Pages  -  BP_CHAOS_PLOT.PL (1)

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NAME

bp_chaos_plot - a chaos plot from DNA and RNA sequences

CONTENTS

SYNOPSIS



  bp_chaos_plot.pl -i/--input=INPUTFILE -f/--format=SEQFORMAT
        -o/--output=OUTPUTFILE -g/--graphics=GRAPHIC FORMAT
        -w/--width=WIGHT -h/--height=HEIGHT



DESCRIPTION

This scripts generates image files using GD image library to visualize nucleotide sequences using chaos plot.

OPTIONS

Valid graphics formats are currently gd, gd2, png, wbmp, jpeg and gif.

The default size of the image file is 600x400.

The sequence input can be provided using any of the three methods:
unnamed argument


  bp_chaos_plot filename



named argument


  bp_chaos_plot -i filename



standard input


  bp_chaos_plot < filename



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 - Jason Stajich

Email jason@bioperl.org

HISTORY

This code is based on EMBOSS C code for chaos.c by Ian Longden. Included are documentation from EMBOSS code:

Chaos produces a chaos plot. The original application is part of the ACEDB genome database package, written by ** Richard Durbin (MRC LMB, UK) rd@mrc-lmba.cam.ac.uk, and Jean Thierry-Mieg (CRBM du CNRS, France) mieg@crbm1.cnusc.fr

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