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Within R, install the required packages.
source("http://bioconductor.org/biocLite.R") biocLite("impute") install.packages(c("shiny","vegan","WGCNA","qgraph","gplots"))
To run locally, use the following commands within R.
library(shiny) runApp("/path_to_microbePlot_folder")
Information and instructions for hosting Shiny applications on a server can be found at http://www.rstudio.com/shiny/.