makemat1
Convert binary profiles into portable ascii form
Usage
makemat [-]
[-E
N]
[-G
N]
[-H]
[-P
filename]
[-S
X]
[-U
str]
[-d
str]
[-z
N]
Overview
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
-doption)
Releases
7 releases since Debian 3.0 (Woody); the text changed 2 times.