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STEM_SHADE

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

stem_shade - This program will shade an RNA alignment according to the assigned structures for each sequence. Basically, it converts the large- small-letter annotation that is used in the col-format to assign r, g and b color columns that can be read by other programs. Stem shade regions will appear as blocks in an RNA structural alignment. 

 

SYNOPSIS

stem_shade
[file]
 

DESCRIPTION

stem_shade will shade an RNA alignment according to the assigned structures for each sequence. Basically, it converts the large- small-letter annotation that is used in the col-format to assign r, g and b color columns that can be read by other programs. Stem shade regions will appear as blocks in an RNA structural alignment.

 

OPTIONS

stem_shade has no options.

 

EXAMPLES

Convert col file to col file.


  stem_shade 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