A complete 16S amplicon sequence analysis workflow

This website provides a detailed explaination of automating the analysis of 16S amplicon read sequences using Snakemake. A complete analysis of 16S amplicon read sequences consists of several steps, ranging from quality control, taxonomy generation to statistical analysis. These steps must be executed in a specific order.

To automate the execution of all analysis steps for 16S amplicon data, we use a workflow manager such as Snakemake. In this tutorial, we will demonstrate how to use Snakemake to create a workflow that reads raw 16S amplicon sequences and produces relative abundace data for subsequent analysis.