Snakemake workflow: cmc-aau/nanopore_16Samp

Workflow to map any amplicon reads against a taxonomic database and produce an abundance table compatible with the ampvis2 R package.

Usage

The usage of this workflow is described in the Snakemake Workflow Catalog.

First install snakemake and snakedeploy, then deploy the workflow in your project using fx

snakedeploy deploy-workflow https://github.com/cmc-aau/nanopore_16Samp . --tag v123

Replace v123 with one of the versions listed under releases.

Then adjust the configuration file config.yml and run the workflow with snakemake according to your setup.

References

https://doi.org/10.1016/j.watres.2023.119919