## Metagenomics / Classify sequences to taxonomic units with Mothur

### Description

Given a fasta file of aligned 16S rRNA sequences, assigns them to taxonomic units (~ species).

### Parameters

None

### Details

Assigns aligned 16S rRNA sequences to taxonomic units using the Wang method and the Silva reference set and its taxonomy file. The bootstrap confidence score is calculated with 1000 iterations.

This tool is based on the Classify.seqs command of the Mothur package.

### Output

The analysis output consists of the following:

- reads-taxonomy-assignment.txt: Taxonomy assignment for each sequence
- classification-summary.txt: Taxonomic outline indicating the number of sequences that were found at each level

### References

Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, Lesniewski RA, Oakley BB, Parks DH, Robinson CJ, Sahl JW, Stres B, Thallinger GG, Van Horn DJ, Weber CF. Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.