ADAPT (Analysis of Microbiome Differential Abundance by Pooling Tobit Models)

[mkbwang]

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[bioc-issue-bot]

Hi @mkbwang

Thanks for submitting your package. We are taking a quick
look at it and you will hear back from us soon.

The DESCRIPTION file for this package is:

Package: ADAPT
Title: Analysis of Microbiome Differential Abundance by Pooling Tobit Models
Version: 0.99.0
Authors@R: 
    c(person(given="Mukai", family="Wang", email="wangmk@umich.edu", role = c("aut", "cre"),
 comment = c(ORCID = "0000-0002-1413-1904")),
      person(given="Simon", family="Fontaine", email="simfont@umich.edu", role = "ctb"),
      person(given="Hui", family="Jiang", email="jianghui@umich.edu", role="ctb"),
      person(given="Gen", family="Li", email="ligen@umich.edu", role=c("aut", "ctb")))
Description: ADAPT carries out differential abundance analysis for microbiome metagenomics data in phyloseq format.
  It has two innovations. One is to treat zero counts as left censored and use Tobit models for log count ratios.
  The other is an innovative way to find non-differentially abundant taxa as reference, then use the reference taxa to 
  find the differentially abundant ones.
License: MIT + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.1.2
Imports:
    Rcpp (>= 1.0.8),
    RcppArmadillo (>= 0.10.8),
    RcppParallel (>= 5.1.5),
    phyloseq (>= 1.39.0),
    methods,
    stats,
    ggplot2 (>= 3.4.1),
    ggrepel (>= 0.9.1)
Suggests: 
    rmarkdown (>= 2.11),
    knitr (>= 1.37),
    testthat (>= 3.0.0)
Config/testthat/edition: 3
LinkingTo:
    Rcpp,
    RcppArmadillo,
    RcppParallel
biocViews: 
    DifferentialExpression, 
    Microbiome, 
    Normalization, 
    Sequencing, 
    Metagenomics,
    Software,
    MultipleComparison
Depends: 
    R (>= 4.1.0)
LazyData: false
VignetteBuilder: knitr

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[bioc-issue-bot]

Dear Package contributor,

This is the automated single package builder at bioconductor.org.

Your package has been built on the Bioconductor Single Package Builder.

Congratulations! The package built without errors or warnings
on all platforms.

Please see the build report for more details.

The following are build products from R CMD build on the Single Package Builder:
Linux (Ubuntu 22.04.3 LTS): ADAPT_0.99.0.tar.gz

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[bioc-issue-bot]

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