article Open AccessTop 1% cited
phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data
PLoS ONE · 2013 · Vol. 8(4) · pp. e61217–e61217
Paul J. McMurdie(Stanford University)Susan Holmes✉(Stanford University)
Abstract
The phyloseq project for R is a new open-source software package, freely available on the web from both GitHub and Bioconductor.
Species Distribution and Climate ChangeData Analysis with RCell Image Analysis TechniquesUniFracComputer scienceData scienceData miningVisualizationData visualizationGraphicsMicrobiomeR packageSoftware
MeSH terms
Data Interpretation, StatisticalHumansPhylogenySoftwareMultivariate AnalysisSequence Analysis, DNAPrincipal Component AnalysisMetagenome
Funding
- National Institutes of Health
Citations
21,760
FWCI
187.87
field-weighted impact
References
95
Percentile
100%
vs. same field & year
Citations per year
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