Explicet: graphical user interface software for metadata-driven management, analysis and visualization of microbiome data

Studies of the human microbiome, and microbial community ecology in general, have blossomed of late and are now a burgeoning source of exciting research findings. Along with the advent of next-generation sequencing platforms, which have dramatically increased the scope of microbiome-related projects...

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Bibliographic Details
Published inBioinformatics Vol. 29; no. 23; pp. 3100 - 3101
Main Authors Robertson, Charles E., Harris, J. Kirk, Wagner, Brandie D., Granger, David, Browne, Kathy, Tatem, Beth, Feazel, Leah M., Park, Kristin, Pace, Norman R., Frank, Daniel N.
Format Journal Article
LanguageEnglish
Published England Oxford University Press 01.12.2013
Subjects
Applications Notes
Computational Biology
Computer Graphics
Computer programs
Database Management Systems
High-Throughput Nucleotide Sequencing
Humans
Licenses
Macintosh personal computers
Metagenome
Microbiota - genetics
Microorganisms
Pipelines
Sequence Analysis, DNA
Software
Source code
User-Computer Interface
Windows (computer programs)
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Summary:Studies of the human microbiome, and microbial community ecology in general, have blossomed of late and are now a burgeoning source of exciting research findings. Along with the advent of next-generation sequencing platforms, which have dramatically increased the scope of microbiome-related projects, several high-performance sequence analysis pipelines (e.g. QIIME, MOTHUR, VAMPS) are now available to investigators for microbiome analysis. The subject of our manuscript, the graphical user interface-based Explicet software package, fills a previously unmet need for a robust, yet intuitive means of integrating the outputs of the software pipelines with user-specified metadata and then visualizing the combined data. Availability and Implementation: Explicet is implemented in C++ via the Qt framework and supported in native code on all major operating systems (Windows, Macintosh, Linux). The source code, documents and tutorials are freely available under an open-source license at www.explicet.org. Contact:  daniel.frank@ucdenver.edu
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Associate Editor: Inanc Birol
ISSN:1367-4803
1367-4811
1367-4811
1460-2059
DOI:10.1093/bioinformatics/btt526