Package: zitools
Title: Analysis of zero-inflated count data
Version: 1.4.0
Authors@R: 
    person("Carlotta", "Meyring", , "carlotta.meyring@uniklinik-freiburg.de", role = c("aut", "cre"),
           comment = c(ORCID = "0009-0000-6201-7615"))
Description: zitools allows for zero inflated count data analysis by
        either using down-weighting of excess zeros or by replacing an
        appropriate proportion of excess zeros with NA. Through
        overloading frequently used statistical functions (such as
        mean, median, standard deviation), plotting functions (such as
        boxplots or heatmap) or differential abundance tests, it allows
        a wide range of downstream analyses for zero-inflated data in a
        less biased manner. This becomes applicable in the context of
        microbiome analyses, where the data is often overdispersed and
        zero-inflated, therefore making data analysis extremly
        challenging.
License: BSD_3_clause + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
Imports: phyloseq, pscl, ggplot2, MatrixGenerics, SummarizedExperiment,
        stats, VGAM, matrixStats, tidyr, tibble, dplyr, DESeq2,
        reshape2, RColorBrewer, magrittr, BiocGenerics, graphics, utils
Suggests: knitr, rmarkdown, BiocStyle, testthat (>= 3.0.0), tidyverse,
        microbiome
Config/testthat/edition: 3
Collate: 'data.R' 'globals.R' 'ziMain.R' 'helper.R'
        'inherited_functions.R' 'plots.R' 'utils.R' 'zitools-package.R'
Depends: R (>= 4.4.0), methods
VignetteBuilder: knitr
biocViews: Software, StatisticalMethod, Microbiome
URL: https://github.com/kreutz-lab/zitools
BugReports: https://github.com/kreutz-lab/zitools/issues
Config/pak/sysreqs: libglpk-dev libicu-dev libxml2-dev libssl-dev
        zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 15:30:43 UTC
RemoteUrl: https://github.com/bioc/zitools
RemoteRef: RELEASE_3_22
RemoteSha: c4def985100aa19c27516e5f3825930735b7294f
NeedsCompilation: no
Packaged: 2026-01-24 20:33:38 UTC; root
Author: Carlotta Meyring [aut, cre] (ORCID:
    <https://orcid.org/0009-0000-6201-7615>)
Maintainer: Carlotta Meyring <carlotta.meyring@uniklinik-freiburg.de>
Built: R 4.5.2; ; 2026-01-24 20:35:56 UTC; windows
