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mOTUs profiler

The mOTUs profiler is a computational tool that estimates relative abundance of known and currently unknown microbial community members using metagenomic shotgun sequencing data. The profiling method is based on ~100,000 universal single-copy marker genes that have been extracted from more than 3,000 metagenomic samples and ~25,000 reference genomes.

Installation

Look at Installation wiki for more information.

Taxonomic profiling

Type motus for more information on the software.

To execute the motus profiler you need to call motus <command> [options]. The possible values for command are:

• profile, perform a taxonomic profiling (map_tax + calc_mgc + calc_motu);
• merge, append different profiles to create a table.

The profile command can be split in:

• map_tax, map reads to the marker gene database, and produce a SAM/BAM file;
• calc_mgc, aggregate reads from the same marker gene cluster (mgc) and it outputs the mgc abundance table. It uses the SAM/BAM file produced by map_tax;
• calc_motu, from a mgc abundance table (created by calc_mgc), produce the mOTUs abundance table;

Usage

• The resulting profile

SNV calling

To execute the motus profiler you need to call motus <command> [options]. The possible values for command are:

• map_snv, map reads to the marker gene database, and produce a BAM file suitable for metaSNV;
• snv_call, SNV calling using metaSNV;