Package: maaslin3
Title: "Refining and extending generalized multivariate linear models
        for meta-omic association discovery"
Year: 2026
Version: 1.5.3
Authors@R: c(
  person("William", "Nickols", email = "willnickols@g.harvard.edu", role = c("aut", "cre"), comment=c(ORCID="0000-0001-8214-9746")), 
  person("Jacob", "Nearing", email = "nearing@broadinstitute.org", role = "aut")
  )
Depends: R (>= 4.4)
Description: MaAsLin 3 refines and extends generalized multivariate
        linear models for meta-omicron association discovery. It finds
        abundance and prevalence associations between microbiome
        meta-omics features and complex metadata in population-scale
        epidemiological studies. The software includes multiple
        analysis methods (including support for multiple covariates,
        repeated measures, and ordered predictors), filtering,
        normalization, and transform options to customize analysis for
        your specific study.
License: MIT + file LICENSE
Imports: data.table, collapse, lmerTest, lme4, optparse, mirai,
        multcomp, ggplot2, RColorBrewer, patchwork, scales, rlang,
        ggnewscale, survival, methods, BiocGenerics, reformulas
Suggests: knitr, testthat (>= 2.1.0), rmarkdown, markdown, kableExtra,
        dplyr, SummarizedExperiment, TreeSummarizedExperiment
VignetteBuilder: knitr
Collate: maaslin_logging.R fit.R utility_scripts.R viz.R maaslin3.R
URL: http://huttenhower.sph.harvard.edu/maaslin3
biocViews: Metagenomics, Software, Microbiome, Normalization,
        MultipleComparison
BugReports: https://github.com/biobakery/maaslin3/issues
NeedsCompilation: no
Packaged: 2026-06-23 16:40:42 UTC; root
RoxygenNote: 7.3.3
Config/pak/sysreqs: cmake make
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-06-23 14:37:58 UTC
RemoteUrl: https://github.com/bioc/maaslin3
RemoteRef: HEAD
RemoteSha: d0bf185869dd54c464f1a1f7f999a1721a92de4e
Author: William Nickols [aut, cre] (ORCID:
    <https://orcid.org/0000-0001-8214-9746>),
  Jacob Nearing [aut]
Maintainer: William Nickols <willnickols@g.harvard.edu>
Built: R 4.6.0; ; 2026-06-23 16:49:59 UTC; unix
