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.