Package: MiRKAT
Title: Microbiome Regression-Based Kernel Association Tests
Version: 1.2.3
Authors@R: c(person("Anna", "Plantinga", role = c("aut", "cre"), email = "amp9@williams.edu"),
             person("Nehemiah", "Wilson", role = c("aut", "ctb")),
             person("Haotian", "Zheng", role = c("aut", "ctb")),
             person("Tianying", "Wang", role = c("aut", "ctb")), 
             person("Xiang", "Zhan", role = c("aut", "ctb")),
             person("Michael", "Wu", role = "aut"),
             person("Ni", "Zhao", role = c("aut", "ctb")),
	           person("Jun", "Chen", role = "aut"))
Maintainer: Anna Plantinga <amp9@williams.edu>
Description: Test for overall association between microbiome
        composition data and phenotypes via phylogenetic kernels. The
        phenotype can be univariate continuous or binary (Zhao et al.
        (2015) <doi:10.1016/j.ajhg.2015.04.003>), survival outcomes
        (Plantinga et al. (2017) <doi:10.1186/s40168-017-0239-9>),
        multivariate (Zhan et al. (2017) <doi:10.1002/gepi.22030>) and
        structured phenotypes (Zhan et al. (2017)
        <doi:10.1111/biom.12684>). The package can also use robust
        regression (unpublished work) and integrated quantile
        regression (Wang et al. (2021)
        <doi:10.1093/bioinformatics/btab668>). In each case, the
        microbiome community effect is modeled nonparametrically
        through a kernel function, which can incorporate phylogenetic
        tree information.
Depends: R (>= 3.1.0)
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.2.3
NeedsCompilation: no
Imports: MASS, CompQuadForm, quantreg, GUniFrac, PearsonDS, lme4,
        Matrix, permute, mixtools, survival, stats
Suggests: knitr, vegan, rmarkdown, magrittr, kableExtra
VignetteBuilder: knitr, rmarkdown
Packaged: 2026-07-03 09:18:16 UTC; root
Author: Anna Plantinga [aut, cre], Nehemiah Wilson [aut, ctb], Haotian
        Zheng [aut, ctb], Tianying Wang [aut, ctb], Xiang Zhan [aut,
        ctb], Michael Wu [aut], Ni Zhao [aut, ctb], Jun Chen [aut]
Config/pak/sysreqs: cmake make libicu-dev libuv1-dev libssl-dev
Repository: https://aplantin.r-universe.dev
Date/Publication: 2023-02-17 13:50:02 UTC
RemoteUrl: https://github.com/cran/MiRKAT
RemoteRef: HEAD
RemoteSha: 7458a2346404eb5e6cde863bf2de58a8b9675837