convert_otu_table_to_unifrac_sample_mapping.py – Convert a QIIME OTU table to a UniFrac sample mapping file

Description:

This script allows users who have picked OTUs in QIIME to convert it to a sample mapping (environment) file for use with the Unifrac web interface.

Usage: convert_otu_table_to_unifrac_sample_mapping.py [options]

Input Arguments:

Note

[REQUIRED]

-i, --otu_table_fp

Path to the otu table

-o, --output_fp

Path to output file

Output:

The result of this script is a sample mapping file for the UniFrac web interface.

Example:

Convert a biom-formatted OTU table to a unifrac sample mapping (environment) file:

convert_otu_table_to_unifrac_sample_mapping.py -i otu_table.biom -o otu_table.sample_mapping.txt