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bp_chaos_plot - a chaos plot from DNA and RNA sequences


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


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


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


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:


AUTHOR - Jason Stajich

Email jason@bioperl.org


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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