convert_unifrac_sample_mapping_to_otu_table.py – Convert a UniFrac sample mapping file to an OTU table

Description:

This script allows users that have already created sample mapping (environment) files for use with the Unifrac web interface to use QIIME. QIIME records this data in an OTU table.

Usage: convert_unifrac_sample_mapping_to_otu_table.py [options]

Input Arguments:

Note

[REQUIRED]

-i, --sample_mapping_fp

Path to the sample mapping file

-o, --output_fp

Path to output file

Output:

The result of this script is an OTU table.

Example:

Convert a UniFrac sample mapping (environment) file into a biom-formatted OTU table:

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