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SHIFTCHK

Section: User Commands (1)
Updated: September 2000
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NAME

shiftchk - helps to find shifted base pairs.

 

SYNOPSIS

shiftchk
[-nnumber | -number=number] [file]

 

DESCRIPTION

shiftchk colors all base pairs, so that each base in a pair has the same color. The left base in a pair has a color decided by its position. This makes it possible to see whether all right pairs in a given column has pairs in the same position. Input is either from file or stdin. The output is sent to stdout.

 

OPTIONS

shiftchk accepts the following options.

-nnumber
--number=number
Sets the number of colors to number. Default is three.

 

EXAMPLES

Color alignment using six colors.

shiftchk -n6 foo.col

 

BUGS

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

 

AUTHOR

Bjarne Knudsen (bk@daimi.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