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