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MAKEMAT(1)		   NCBI	Tools User's Manual		    MAKEMAT(1)

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 op-
       tion 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 op-
	      tion)

AUTHOR
       The National Center for Biotechnology Information.

SEE ALSO
       blast(1), copymat(1), impala.html

NCBI				  2004-06-25			    MAKEMAT(1)

NAME | SYNOPSIS | DESCRIPTION | OPTIONS | AUTHOR | SEE ALSO

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