NAME

       psort - bacterial localization prediction tool

SYNOPSIS

       psort [-p|-n] [OPTIONS] [SEQFILE]

DESCRIPTION

       Runs  psort  on the sequence file SEQFILE .  If SEQFILE isn't provided then sequences will
       be read from STDIN.

       --help, -h
              Displays usage information

       --positive, -p
              Gram positive bacteria

       --negative, -n
              Gram negative bacteria

       --archaea, -a
              Archaea

       --cutoff, -c
              Sets a cutoff value for reported results

       --divergent, -d
              Sets a cutoff value for the multiple localization flag

       --matrix, -m
              Specifies the path to the pftools installation.  If not set, defaults to the  value
              of the PSORT_PFTOOLS environment variable.

       --format, -f
              Specifies sequence format (default is FASTA)

       --exact, -e
              Skip SCLBLASTe (useful for batch runs of data against itself in SCLBLAST)

       --output, -o
              Specifies  the  format  for  the  output (default is 'normal'  Value can be one of:
              terse, long or normal

       --root, -r
              Specify PSORT_ROOT for running local copies.  If not set, defaults to the value  of
              the PSORT_ROOT environment variable.

       --server, -s
              Specifies the PSort server to use

       --verbose, -v
              Be verbose while running

       --x-skip-localization

       --version
              Print the version of PSortb

AUTHOR

       This  manpage was written by Andreas Tille for the Debian distribution and can be used for
       any other usage of the program.