GENCOIL(1) User Commands GENCOIL(1)NAME
gencoil - Generates a virtual coil suitable for sequence simulation in ODIN
DESCRIPTION
gencoil: Generates a virtual coil suitable for sequence simulation in ODIN
Usage and options:
Generate a radially inhomogenous coil:
gencoil -rad -n <inplane-size> -fov <FOV> -R <radial-inhomogeneity[%]> -o <Coil-file>
Generate an array coil by rotating pre-existing image file:
gencoil -rot -n <inplane-size> -fov <FOV> -nc <numof-rotated-subcoils> -i <input-image> -sl <selected-slice> -o <Coil-file>
Generate an array coil consisting of simple loops:
gencoil -arr -n <inplane-size> -nc <numof-rotated-loops>
-fov <FOV> -R <array-radius> -o <Coil-file>
Generate coil with a B1 gradient:
gencoil -grad -n <inplane-size> -fov <FOV> -g <B1-gradient-endpoint> -o <Coil-file>
Other options:
-v <loglevel> or <component:loglevel> for debugging/tracing all components or a single component, respectively. Possible values for
loglevel are: 0(noLog), 1(errorLog), 2(warningLog), 3(infoLog).
-h, --help, -help, --version : Print help text or version information
gencoil 1.8.5 March 2012 GENCOIL(1)
Check Out this Related Man Page
COILS-WRAP(1) User Commands COILS-WRAP(1)NAME
coils-wrap - runs ncoils three times to give you a three-window output
SYNOPSIS
coils-wrap [OPTION]
DESCRIPTION
coils-wrap runs ncoils three times to give you a three-window output.
ncoils is a program that compares a sequence to a database of known parallel two-stranded coiled-coils and derives a similarity score. By
comparing this score to the distribution of scores in globular and coiled-coil proteins, the program then calculates the probability that
the sequence will adopt a coiled-coil conformation.
OPTIONS -i input file in FASTA format
-o output file
-r raw output file, default: `<output file>_raw'
-m matrix type; set matrix (MTK or MTIDK)
-w weight a&d = b,c,e,f&g (boolean)
EXAMPLES
"coils-wrap -m MTIDK -i /usr/share/doc/ncoils/1srya.fa -o /tmp/coils.out -r /tmp/coils_raw.txt && less /tmp/coils.out /tmp/coils_raw.txt"
"ncoils -win 14 < /usr/share/doc/ncoils/1srya.fa"
FILES
/usr/share/coiledcoils/*.mat
matrix data files
AUTHOR
R.B. Russell, A.N. Lupas, 1999
COPYRIGHT AND LICENSE
GPL
Based on Lupas, Van Dyck & Stock (1991) Science 252,1162-1164
SEE ALSO ncoils(1), "usr/share/doc/coils/README", http://www.russelllab.org/cgi-bin/coils/coils-svr.pl <http://www.russelllab.org/cgi-
bin/coils/coils-svr.pl>
A Lupas: Prediction and Analysis of Coiled-Coil Structures. Methods in Enzymology, 266, 513-525, 1996
A. Lupas, M. Van Dyke, and J. Stock: Predicting coiled coils from protein sequences. Science, 252, 1162-1164, 1991
2002 2011-10-29 COILS-WRAP(1)
Hi Guys,
I have a variable such that:
set x = (Session,Date,Type,Receive Coil Name,Manufacturer,Manufacturer's Model Name)
foreach i ($x)
echo $i
end
I would like to read each variable one by one like:
Session
Date
Type
Receive Coil Name
Manufacturer
Manufacturer's Model Name
Is... (1 Reply)