p3-user-subsystem¶
Create a Spreadsheet for a Custom Subsystem¶
p3-user-subsystem.pl [options] featureGroup1 featureGroup2 ... featureGroupN
This script takes as input the names of one or more feature groups and builds a subsystem spreadsheet. The spreadsheet is output in both tab-delimited and HTML formats.
The features listed in the feature groups define subsystem variants. The subsystem may then be projected onto each genome in an optionally-specified genome group. Projection is done using protein families.
Parameters¶
The positional parameters are the name of the subsystem and the names or one or more feature groups.
The command-line options are the following
outDir
The name of an output directory into which the output files
spreadsheet.txt
andspreadsheet.html
will be written. The default is the current directory.
genomes
The name of a genome group. If specified, the subsystem will be projected onto the genomes in this group.