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Man Pages


Manual Reference Pages  -  MAKEMAT (1)

NAME

makemat - convert binary profiles into portable ASCII form

CONTENTS

Synopsis
Description
Options
Author
See Also

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), impala.html
Search for    or go to Top of page |  Section 1 |  Main Index


NCBI MAKEMAT (1) 2004-06-25

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