zAMP and zAMPExplorer: Reproducible Scalable Amplicon-based Metagenomics Analysis and Visualization

Abstract excerpt

<h4>Summary</h4> To enable flexible, scalable, and reproducible microbiota profiling, we have developed zAMP, an open-source bioinformatics pipeline for the analysis of amplicon sequence data, such as 16S rRNA gene for bacteria and archaea or ITS for fungi. zAMP is complemented by two modules, one to process databases to optimize taxonomy assignment, and the second to benchmark primers, databases and classifier p...

Topics

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• Algorithms
• Bacteria
• Computational Biology
• High-Throughput Nucleotide Sequencing
• Metagenome
• Microbiota
• RNA, Ribosomal, 16S
• Workflow

Identifiers and source

Literature Corpus work

91ea6d23-9c43-58c4-9a9a-997d3e259373

DOI

10.1101/2025.03.09.633768