Package: microbiomeExplorer
Type: Package
Title: Microbiome Exploration App
Version: 1.20.0
Date: 2022-09-01
Authors@R: c(
    person("Joseph", "Paulson", , "paulson.joseph@gene.com", role = c("aut")),
    person("Janina", "Reeder", , "reederj1@gene.com", role = c("aut", "cre")),
    person("Mo", "Huang", role = c("aut")),
    person("Genentech", role = c("cph", "fnd"))
    )
Description: The MicrobiomeExplorer R package is designed to facilitate
        the analysis and visualization of marker-gene survey feature
        data. It allows a user to perform and visualize typical
        microbiome analytical workflows either through the command line
        or an interactive Shiny application included with the package.
        In addition to applying common analytical workflows the
        application enables automated analysis report generation.
License: MIT + file LICENSE
Imports: shinyjs (>= 2.0.0), shinydashboard, shinycssloaders,
        shinyWidgets, rmarkdown (>= 1.9.0), DESeq2, RColorBrewer,
        dplyr, tidyr, purrr, rlang, knitr, readr, DT (>= 0.12.0),
        biomformat, tools, stringr, vegan, matrixStats, heatmaply, car,
        broom, limma, reshape2, tibble, forcats, lubridate, methods,
        plotly (>= 4.9.1)
Depends: shiny, magrittr, metagenomeSeq, Biobase
Suggests: V8, testthat (>= 2.1.0)
DeploySubPath: microbiomeExplorer
biocViews: Classification, Clustering, GeneticVariability,
        DifferentialExpression, Microbiome, Metagenomics,
        Normalization, Visualization, MultipleComparison, Sequencing,
        Software, ImmunoOncology
Encoding: UTF-8
RoxygenNote: 7.2.1
VignetteBuilder: knitr
Config/pak/sysreqs: cmake make libmagick++-dev gsfonts libicu-dev
        libssl-dev libx11-dev zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 15:03:17 UTC
RemoteUrl: https://github.com/bioc/microbiomeExplorer
RemoteRef: RELEASE_3_22
RemoteSha: 307275ff9e60d1a83d15adc7f4666d114c935fcb
NeedsCompilation: no
Packaged: 2026-02-03 08:30:12 UTC; root
Author: Joseph Paulson [aut],
  Janina Reeder [aut, cre],
  Mo Huang [aut],
  Genentech [cph, fnd]
Maintainer: Janina Reeder <reederj1@gene.com>
Built: R 4.5.2; ; 2026-02-03 08:32:06 UTC; windows
