Man page - predictnls(1)
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Manual
PREDICTNLS
NAMESYNOPSIS
DESCRIPTION
Output format
REFERENCES
OPTIONS
EXAMPLES
ENVIRONMENT
FILES
AUTHOR
COPYRIGHT AND LICENSE
NAME
predictnls - prediction and analysis of nuclear localization signals
SYNOPSIS
predictnls [ OPTION ]
DESCRIPTION
predictnls is a method for the prediction and analysis of nuclear localization signals ( NLS )
Output format
Self-annotating, see example outputs in /usr/share/doc/predictnls/examples .
REFERENCES
Cokol, M., Nair,
R., and Rost, B. (2000). Finding nuclear localization
signals.
EMBO
Rep, 1(5), 411-5.
OPTIONS
debug=[0|1]
fileIn=<
FILE
>
Input file in fasta format. Required. Only one sequence per file.
fileOut=< FILE >
Output file. Required.
help
html=[0|1|2]
Output format. 0 - text; 1 - html; 2 - both. Default: 0 .
If both outputs are requested, the text file is named according to the value of fileOut and the html file gets an ‘.html’ extension.
fileSummary=< FILE >
If set ‘1’ is written into this file if an NLS is found, ‘0’ otherwise. Optional.
nlsdat=< FILE >
Raw nls data, optional
version
Print version.
EXAMPLES
"predictnls fileIn=/usr/share/doc/predictnls/examples/O49931.fa fileOut=/tmp/O49931.nls"
ENVIRONMENT
PREDICTNLSCONF
Location of predictnlsrc configuration file to use overriding other configuration files
FILES
/usr/share/predictnls/predictnlsrc.default
Default configuration file. See this file for a description of the parameters.
/etc/predictnlsrc
System configuration file overriding values in /usr/share/predictnls/predictnlsrc.default
˜/.predictnlsrc
User configuration file overriding values in /etc/predictnlsrc
$PREDICTNLSCONF
If this environment variable is set ˜/.predictnlsrc is disregarded and the value of the variable is read for configuration options overriding /etc/predictnlsrc
AUTHOR
R. Nair
COPYRIGHT AND LICENSE
(C) Copyright 2010, R. Nair License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html>. This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law.