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

url

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

c

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.