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STEM_VARIATION

Section: User Commands (1)
Updated: October 2005
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NAME

stem_variation - Colors alignment according to differences from a reference sequence.

 

SYNOPSIS

stem_variation
[file]
 

DESCRIPTION

stem_variation will color alignment according to differences from a reference sequence (first sequence in the alignment if nothing else is given):
Green  = no change
Yellow = semi-conservative basechange
Orange = conservative basechange
Red    = mismatch
White  = gap

 

OPTIONS

stem_variation has no options.

 

EXAMPLES

Convert col file to col file.


  stem_variation foo.col > foo_color.col

 

BUGS

Report bugs to col-bugs@bioinf.au.dk.  

AUTHOR

Ebbe Sloth Andersen (esa@mb.au.dk)  

SEE ALSO


 

Index

NAME

SYNOPSIS

DESCRIPTION

OPTIONS

EXAMPLES

BUGS

AUTHOR

SEE ALSO



Comments, questions, etc., email gorodkin@genome.ku.dk.


Last updated March 26th, 2007 by Jan Gorodkin