BP_CHAOS_PLOT(1) User Contributed Perl Documentation BP_CHAOS_PLOT(1)NAME
bp_chaos_plot - a chaos plot from DNA and RNA sequences
SYNOPSISbp_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
perl v5.20.2 2015-09-15 BP_CHAOS_PLOT(1)
