DT, Hmisc, data.table, foreign, ggplot2, methods, openxlsx,
readr, shiny, shinyFiles, shinydashboard, shinyjs, stringi,
stringr

DT, Hmisc, data.table, foreign, ggplot2, methods, openxlsx,
rclipboard, readr, shiny, shinyFiles, shinydashboard, shinyjs,
stringi, stringr

This package provides a series of functions to make amplicon-based metagenomic analysis more accessible, and publication-quality plots simple. Amplicon-based (or targeted) metagenomics amplifies and sequences selected DNA regions of environmental samples, but not the entire pool of genetic material, which is referred to as shotgun metagenomics. The amplicon-metagenomics mainly aims at characterizing broad microbiota biodiversity in different environments.
gridExtra, RColorBrewer, indicspecies, Heatplus,
splitstackshape, gplots, plyr, reshape2, scales, labdsv, grid,
stringr, ggmap, permute

gridExtra, RColorBrewer, gplots, plyr, reshape2, scales,
labdsv, grid, stringr, ggmap, permute

gridExtra, RColorBrewer, gplots, plyr, reshape2, scales,
labdsv, grid, ggmap, permute, VennDiagram, data.table, FD,
MASS, RgoogleMaps, ape, lattice, reshape
testthat, mapproj, gtable, indicspecies, Heatplus

Wen Chen, Joshua Simpson, C. Andre Levesque
Characterizing environmental microbiota diversity using amplicon-based next generation sequencing (NGS) data. Functions are developed to manipulate operational taxonomic unit (OTU) table, perform descriptive and inferential statistics, and generate publication-quality plots.
RColorBrewer, gplots, plyr, reshape2, scales, labdsv, grid,
gridExtra, ggmap, permute, VennDiagram, data.table, FD, MASS,
RgoogleMaps, lattice, reshape, ade4, phangorn, phytools, Hmisc,
utils

RColorBrewer, gplots, plyr, reshape2, scales, labdsv, grid,
gridExtra, ggmap, permute, VennDiagram, data.table, FD, MASS,
RgoogleMaps, lattice, reshape, ade4, phangorn, phytools, utils,
graphics, grDevices, ape

gridExtra, RColorBrewer, gplots, plyr, reshape2, scales,
labdsv, grid, ggmap, permute, VennDiagram, data.table, FD,
MASS, RgoogleMaps, lattice, reshape, ade4, phangorn, phytools,
Hmisc