svr_atomic_regulons

    svr_atomic_regulons -g genome >experiments.tbl

List all the atomic regulons computed for a specified genome or for all genomes lists in a file.

This script takes as input one or more genomes and for each genome lists all the atomic regulons associated with it along with their component pegs. The input should be a tab-delimited file with genome IDs in the last column. The output file will have an two additional columns containing the atomic regulon ID and the peg ID, respectively.

This is a pipe command. The input is from the standard input and the output is to the standard output. The number of output lines will in general be far greater than the number of input genomes.

Command-Line Options

url

The URL for the Sapling server, if it is to be different from the default.

c

Index (1-based) of the input column containing the genome ID. If omitted, the last column of the input will be used.

g

ID of a genome. If this option is specified, then the output file will contain two columns, with the incoming genome ID in the first column of every line and the second column containing the experiment IDs. The standard input will not be read.