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.

1.0.20                                             2022-01-18                                      PREDICTNLS(1)