Hundo: a Snakemake workflow for microbial community sequence data
Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, Washington, United States
- Published
- Accepted
- Subject Areas
- Bioinformatics
- Keywords
- 16S, ITS, 18S, metagenome
- Copyright
- © 2018 Brown et al.
- Licence
- This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ Preprints) and either DOI or URL of the article must be cited.
- Cite this article
- 2018. Hundo: a Snakemake workflow for microbial community sequence data. PeerJ Preprints 6:e27272v1 https://doi.org/10.7287/peerj.preprints.27272v1
Abstract
Hundo is a software package that performs quality control and annotation of ribosomal RNA and internal transcribed spacer sequence reads. It provides a comprehensive suite of tools and options that aim to reduce the effort of performing robust sequence annotation while obtaining the maximum amount of data provenance to ensure replicability. The software package performing annotation is implemented in Python, the analytical workflow is implemented in Snakemake, and dependencies are installed via Bioconda. Extensive documentation and the full source code are available under the MIT license at: https://github.com/pnnl/hundo.
Author Comment
This is a preprint submission to PeerJ Preprints.