Documentation read from 04/17/2019 22:07:28 version of /vol/public-pseed/FIGdisk/FIG/bin/svr_taxonomy.



Get taxonomy of genomes

------ Example: svr_taxonomy < file of genome ids > file of genome ids taxonomy

would produce a 2-column table. The first column would contain the input genome id, and the second would contain the taxonomy of that genome


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 GENOME for which the taxonomy is being requested. If some other column contains the Genome id's, use

    -c N

where N is the column (from 1) that contains the ID 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 IDs 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 (the taxonomy associated with the GENOME).