Package: maaslin3 Title: "Refining and extending generalized multivariate linear models for meta-omic association discovery" Year: 2026 Version: 1.5.7 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 (>= 2.1.0), 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: 2026-10-16 06:18:50 UTC; root RoxygenNote: 7.3.3 Config/pak/sysreqs: cmake make Repository: https://bioc.r-universe.dev Date/Publication: 2026-09-15 17:48:32 UTC RemoteUrl: https://github.com/bioc/maaslin3 RemoteRef: HEAD RemoteSha: 8c95d114b621321a6d504cd7c23f694cb7362561 Author: William Nickols [aut, cre] (ORCID: ), Jacob Nearing [aut] Maintainer: William Nickols