**eDNA-seq Metabarcoding annotation** is specifically used for the analysis of environmental DNA metabarcoding NGS data, demultiplexing, filtering, dereplicating and taxonomic assignment (NCBI taxonomy and custom taxonomy).
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.
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](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.
