BaseSpace 16S Metagenomics App General Information

General Information:

The 16S Metagenomics App on BaseSpace Sequence Hub can be viewed here.

• Available versions: v1.0.1 and v1.1.0

• Purpose of App: Taxonomic classification of 16S rRNA targeted amplicon reads using the selected taxonomic database.

Databases available:

• Illumina-curated version of GreenGenes May 2013 (available on all app versions).

• RefSeq RDP 16S v3 May 2018 DADA2 32 bp (app v1.1.0 only).

• UNITE Fungal ITS Databases v7.2 (app v1.1.0 only).

• Custom (app v1.1.0 only; prior to use, a custom reference database must be created using the 16S Metagenomics Database Creator app).

Required Input:

• Sample Fastq files. Requirements:

  • Read Length at least 100 bp.

  • Each dataset is less than 50 Gigabases.

• Optional: If using a custom database, the .DAT file produced by 16S Metagenomics Database Creator.

Output:

Aggregate Results:

• PDF Aggregate report.

• CSV files for each sublevel classification.

  

Individual Sample Results:

• PDF Report (includes tables, graphs, and charts).

• Summary.csv (full taxonomic classification of reads with the number of reads and percent).

  

Additional Information

• The 16S Metagenomics App workflow is the same as the Metagenomics workflow in MiSeq Reporter and 16S Metagenomics Module in Local Run Manager.

For any feedback or questions regarding this article (Illumina Knowledge Article #3210), contact Illumina Technical Support [e-mail].