zAMP and zAMPExplorer: reproducible scalable amplicon-based metagenomics analysis and visualization
Comprehensive documentation and tutorials are provided alongside the source code of zAMP and zAMPExplorer software to facilitate installation and use. zAMP is implemented as a Snakemake workflow, ensuring reproducibility by running within Singularity or Docker containers, and is also easily installable via Bioconda. The zAMPExplorer application, designed for visualization and statistical analysis, can be installed using either a Docker image or from R-universe.
Authors
- Violeta Castelo-Szekely (ORCID: https://orcid.org/0000-0002-7390-0355)
- Trestan Pillonel (ORCID: https://orcid.org/0000-0002-5725-7929)
- Valentin Scherz (ORCID: https://orcid.org/0000-0002-9746-5423)
- Farid Chaabane (ORCID: https://orcid.org/0009-0007-9322-1281)
- Claire Bertelli (ORCID: https://orcid.org/0000-0003-0550-8981)
- Gilbert Greub (ORCID: https://orcid.org/0000-0001-9529-3317)
- Sedreh Nassirnia
Institutions
- University of Lausanne (CH)
Publication Details
- Journal
- Bioinformatics Advances
- Published
- 2024-12-26
- DOI
- https://doi.org/10.1093/bioadv/vbaf255
- Citations
- 1
- Primary Topic
- Genomics and Phylogenetic Studies
- Type
- article
- Field-Weighted Citation Impact
- 0.23
Funders
- National Science Foundation
- Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung