2017
DOI: 10.1101/105205
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Metaviz: interactive statistical and visual analysis of metagenomic data

Abstract: Along with the survey techniques of 16S rRNA amplicon and whole-metagenome shotgun sequencing, an array of tools exists for clustering, taxonomic annotation, normalization, and statistical analysis of microbiome sequencing results. Integrative and interactive visualization that enables researchers to perform exploratory analysis in this feature rich hierarchical data is an area of need. In this work, we present Metaviz, a web browser-based tool for interactive exploratory metagenomic data analysis. Metaviz can… Show more

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Cited by 6 publications
(5 citation statements)
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“…Developing animal-specific databases (Simister et al, 2012b), which include the next-generation supplied sequences generally not available in curated taxonomic databases, could help alleviate this problem. There are also a number of new tools for metagenomicsbased analysis, including advancements in binning genomes from complex samples (Kang et al, 2015;Graham et al, 2017) as well as new visualization methods for comparing genomes (Eren et al, 2015;Wagner et al, 2017). A challenging issue that has received less attention is how to gain information from unknown genes and gene families, which can make up over half of the environmental microbial genomes.…”
Section: Challenges and Emerging Solutions To Studying Animal-microbimentioning
confidence: 99%
“…Developing animal-specific databases (Simister et al, 2012b), which include the next-generation supplied sequences generally not available in curated taxonomic databases, could help alleviate this problem. There are also a number of new tools for metagenomicsbased analysis, including advancements in binning genomes from complex samples (Kang et al, 2015;Graham et al, 2017) as well as new visualization methods for comparing genomes (Eren et al, 2015;Wagner et al, 2017). A challenging issue that has received less attention is how to gain information from unknown genes and gene families, which can make up over half of the environmental microbial genomes.…”
Section: Challenges and Emerging Solutions To Studying Animal-microbimentioning
confidence: 99%
“…For an efficient and focused review process, we excluded the following tools from our survey, reflecting the scope of our research. First, we excluded tools that do not visualize genome-mapped data [42], i.e., tools that do not include visualizations that use a genomic coordinate system (e.g., Metaviz [63]). Second, we excluded tools that do not have working online demos.…”
Section: Methodsmentioning
confidence: 99%
“…Furthermore, Brian Ondov (UMD, NIH, NHGRI) shared his implementation of the MinHash containment estimation algorithm to screen metagenomes for the presence of genomes and plasmids [ 28 ]. Data visualization is important for accurately interpreting microbiome data analyses, and Dr. Héctor Corrada-Bravo (UMD) demonstrated how to use his lab’s tool, Metaviz [ 29 ], for interactive statistical analysis of metagenomes.…”
Section: Key Conclusionmentioning
confidence: 99%