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    Metaviz: interactive statistical and visual analysis of metagenomic data

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    Author
    Wagner, J.
    Chelaru, F.
    Kancherla, J.
    Date
    2018
    Journal
    Nucleic Acids Research
    Publisher
    Oxford University Press
    Type
    Article
    
    Metadata
    Show full item record
    See at
    https://dx.doi.org/10.1093/nar/gky136
    Abstract
    Large studies profiling microbial communities and their association with healthy or disease phenotypes are now commonplace. Processed data from many of these studies are publicly available but significant effort is required for users to effectively organize, explore and integrate it, limiting the utility of these rich data resources. Effective integrative and interactive visual and statistical tools to analyze many metagenomic samples can greatly increase the value of these data for researchers. We present Metaviz, a tool for interactive exploratory data analysis of annotated microbiome taxonomic community profiles derived from marker gene or whole metagenome shotgun sequencing. Metaviz is uniquely designed to address the challenge of browsing the hierarchical structure of metagenomic data features while rendering visualizations of data values that are dynamically updated in response to user navigation. We use Metaviz to provide the UMD Metagenome Browser web service, allowing users to browse and explore data for more than 7000 microbiomes from published studies. Users can also deploy Metaviz as a web service, or use it to analyze data through the metavizr package to interoperate with state-of-the-art analysis tools available through Bioconductor. Metaviz is free and open source with the code, documentation and tutorials publicly accessible. C The Author(s) 2018.
    Sponsors
    This work was partially supported by National Institutes of Health (NIH) [RO1GM114267, U54DK102556]; US National Science Foundation Graduate Research Fellowship [DGE0750616 ]. Funding for open access charge: NIH [RO1GM114267].
    Keyword
    Data Analysis
    Data Science--instrumentation
    Data Visualization
    Metagenome
    Identifier to cite or link to this item
    https://www.scopus.com/inward/record.uri?eid=2-s2.0-85049093264&doi=10.1093%2fnar%2fgky136&partnerID=40&md5=b7a5abfb0504f1cb7e7e7b419a802b09; http://hdl.handle.net/10713/9442
    ae974a485f413a2113503eed53cd6c53
    10.1093/nar/gky136
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