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. 2015 Nov 17;44(Database issue):D595–D603. doi: 10.1093/nar/gkv1195

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© The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 1. — Schematic of the analysis pipeline. Processes/components are indicated as circles and inputs/outputs are represented by rectangles. The structure of pipeline v2.0 is similar to that of v1.0. Following input file preparation and a QC stage (to remove short/low quality reads), the pipeline branches into two parts: one performing taxonomic classification (based on 16S rRNA) and the other providing functional annotation (based on pCDS matches to a subset of the InterPro databases). A full description of the steps, tools and reference libraries used is provided on the EMG website at https://www.ebi.ac.uk/metagenomics/pipelines/2.0.