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Qiime Artifact eXtractor (qax): A Fast and Versatile Tool to Interact with Qiime2 Archives

Quadram Institute Bioscience, Gut Microbes and Health Program, Norwich Research Park, Norwich NR4 7UQ, UK
Received: 3 December 2020 / Revised: 24 February 2021 / Accepted: 25 February 2021 / Published: 3 March 2021
Qiime2 is one of the most popular software tools used for analysis of output from metabarcoding experiments (e.g., sequencing of 16S, 18S, or ITS amplicons). Qiime2 introduced a novel and innovative data exchange format: the ‘Qiime2 artifact’. Qiime2 artifacts are structured compressed archives containing a dataset and its associated metadata. Examples of datasets are FASTQ reads, representative sequences in FASTA format, a phylogenetic tree in Newick format, while examples of metadata are the command that generated the artifact, information on the execution environment, citations on the used software, and all the metadata of the artifacts used to produce it. While artifacts can improve the shareability and reproducibility of Qiime2 workflows, they are less easily integrated with general bioinformatics pipelines. Accessing metadata in the artifacts also requires full Qiime2 installation. Qiime Artifact eXtractor (qax) allows users to easily interface with Qiime2 artifacts from the command line, without needing the full Qiime2 environment installed (or activated). View Full-Text
Keywords: bioinformatics; microbiome; metabarcoding; Qiime2; metadata bioinformatics; microbiome; metabarcoding; Qiime2; metadata
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MDPI and ACS Style

Telatin, A. Qiime Artifact eXtractor (qax): A Fast and Versatile Tool to Interact with Qiime2 Archives. BioTech 2021, 10, 5. https://0-doi-org.brum.beds.ac.uk/10.3390/biotech10010005

AMA Style

Telatin A. Qiime Artifact eXtractor (qax): A Fast and Versatile Tool to Interact with Qiime2 Archives. BioTech. 2021; 10(1):5. https://0-doi-org.brum.beds.ac.uk/10.3390/biotech10010005

Chicago/Turabian Style

Telatin, Andrea. 2021. "Qiime Artifact eXtractor (qax): A Fast and Versatile Tool to Interact with Qiime2 Archives" BioTech 10, no. 1: 5. https://0-doi-org.brum.beds.ac.uk/10.3390/biotech10010005

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