Documentation read from 04/17/2019 22:07:25 version of /vol/public-pseed/FIGdisk/FIG/bin/svr_distinct_otus.



    svr_distinct_otus <genome_ids.tbl >genome_data.tbl

Classify the incoming genome IDs into organism taxonomic units.

This script takes as input a tab-delimited file with genome IDs at the end of each line. The output contains only the genome IDs. Genomes belonging to the same OTU will appear on a single line. Counting the output lines will therefore return the number of distinct OTUs found in the input.

This is a pipe command: the input is taken from the standard input and the output is to the standard output. It can optionally take as input a list of genome IDs specified as command-line parameters.

Command-Line Options


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


Column index. If specified, indicates that the input IDs should be taken from the indicated column instead of the last column. The first column is column 1.