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MAKEMAT

MAKEMAT

Section: NCBI Tools User's Manual (1) Updated: 2004-06-25
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NAME

makemat - convert binary profiles into portable ASCII form  

SYNOPSIS

makemat [-] [-E N] [-G N] [-H] [-P filename] [-S X] [-U str] [-d str] [-z N]  

DESCRIPTION

makemat converts a collection of binary profiles, created by the -C option of PSI-BLAST, into portable ASCII form.  

OPTIONS

A summary of options is included below.
-
Print usage message
-E N
Cost to extend a gap (default = 1)
-G N
Cost to open a gap (default = 11)
-H
Print help; overrides all other arguments
-P filename
Database name for profile database (default = stdin)
-S X
Scaling factor for matrix outputs to avoid round-off problems (default = 100)
-U str
Underlying Matrix (default = BLOSUM62)
-d str
Underlying sequence database used to make profiles (default = nr)
-z N
Effective length of the profile database (0 for length of -d option)
 

AUTHOR

The National Center for Biotechnology Information.  

SEE ALSO

blast(1), copymat(1), /usr/share/doc/blast2/impala.html


 

Index

NAME
SYNOPSIS
DESCRIPTION
OPTIONS
AUTHOR
SEE ALSO

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Time: 21:14:48 GMT, April 16, 2011