Documentation read from 04/17/2019 22:07:27 version of /vol/public-pseed/FIGdisk/FIG/bin/svr_project_by_sr.



Get corresponding genes.



    svr_all_features 3702.1 peg | svr_project_by_sr

would produce a 2-column table. The first column would contain PEG IDs for genes occurring in genome 3702.1, and the second would contain a peg believed to correspond in a second genome

The svr_corresponding_genes command can be used to map from one known genome to another. However, this command is the start of a tool for mapping specific genes to sets of corresponding genes (envision using FIGfams, subsystems, or whatever). For now we use just the technology of Solid Rectangles.


The standard input should be a tab-separated table (i.e., each line is a tab-separated set of fields). Normally, the last field in each line would contain the PEG for which functions are being requested. If some other column contains the PEGs, use

    -c N

where N is the column (from 1) that contains the PEG in each case.

This is a pipe command. The input is taken from the standard input, and the output is to the standard output.

Command-Line Options

-c Column

This is used only if the column containing PEGs is not the last.

Output Format

The standard output is a tab-delimited file. It consists of the input file with an extra column added (a peg that is putatively an isofunctional homolog).