**eDNA-seq Metabarcoding OTU-clustering** is a bioinformatics pipeline built using Snakemake, a workflow tool to run tasks across multiple compute infrastructures in a very portable manner. It comes with docker containers making installation trivial and results highly reproducible.
**eDNA-seq Metabarcoding OTU-clustering** is a bioinformatics pipeline built using Snakemake, a workflow tool to run and manage tasks in any execution environment. It comes with docker containers making installation trivial and results reproducible.
## Introduction
**eDNA-seq Metabarcoding OTU-clustering** is specifically used for the analysis of environmental DNA metabarcoding NGS data, demultiplexing, filtering and clustering sequences in Operational Taxonomic Unit (OTU).
This pipeline has been initially tested with marine environment samples, using molecular markers such as Vert01 ([Riaz et al. 2011](https://doi.org/10.1093/nar/gkr732)), Teleo01 ([Valentini et al. 2016](https://doi.org/10.1111/mec.13428)), Chond01 or Mamm01 ([Taberlet et al. 2018](https://doi.org/10.1093/oso/9780198767220.001.0001)). The workflow should work with any organisms and environment. It is proven for large-scale data analysis.
This pipeline has been initially tested with marine environmental DNA samples, using molecular markers such as Vert01 ([Riaz et al. 2011](https://doi.org/10.1093/nar/gkr732)), Teleo01 ([Valentini et al. 2016](https://doi.org/10.1111/mec.13428)), Chond01 or Mamm01 ([Taberlet et al. 2018](10.1093/oso/9780198767220.001.0001)). The workflow should work with any organisms and environment. It is proven for large-scale data analysis.
