bp_chaos_plot(1) 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


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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.

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AUTHOR - Jason Stajich

Email [email protected]


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) [email protected], and Jean Thierry-Mieg (CRBM du CNRS, France) [email protected]