Package: microSTASIS
Title: Microbiota STability ASsessment via Iterative cluStering
Version: 1.4.0
Description: The toolkit 'µSTASIS', or microSTASIS, has been developed for the stability analysis
            of microbiota in a temporal framework by leveraging on iterative 
            clustering. Concretely, the core function uses Hartigan-Wong k-means
            algorithm as many times as possible for stressing out paired samples
            from the same individuals to test if they remain together for 
            multiple numbers of clusters over a whole data set of individuals. 
            Moreover, the package includes multiple functions to subset samples
            from paired times, validate the results or visualize the output.
Authors@R: c(
    person(given = "Pedro",
           family = "Sánchez-Sánchez",
           role = c("aut", "cre"),
           email = "bio.pedro.technology@gmail.com",
           comment = c(ORCID = "0000-0002-4846-1813")),
    person(given = "Alfonso",
           family = "Benítez-Páez",
           role = c("aut"),
           email = "alfbenpa@gmail.com",
           comment = c(ORCID = "0000-0001-5707-4340")))
License: GPL-3
Imports: BiocParallel, ggplot2, ggside, grid, rlang, stats, stringr,
        TreeSummarizedExperiment
Suggests: BiocStyle, gghighlight, knitr, rmarkdown, methods,
        RefManageR, sessioninfo, SingleCellExperiment,
        SummarizedExperiment, testthat (>= 3.0.0)
biocViews: GeneticVariability, BiomedicalInformatics, Clustering,
        MultipleComparison, Microbiome
BugReports: https://github.com/BiotechPedro/microSTASIS
URL: https://doi.org/10.1093/bib/bbac055
Encoding: UTF-8
LazyData: FALSE
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.1
VignetteBuilder: knitr
Depends: R (>= 4.2.0)
Config/testthat/edition: 3
git_url: https://git.bioconductor.org/packages/microSTASIS
git_branch: RELEASE_3_19
git_last_commit: 68dc889
git_last_commit_date: 2024-04-30
Repository: Bioconductor 3.19
Date/Publication: 2024-04-30
NeedsCompilation: no
Packaged: 2024-05-01 05:38:10 UTC; biocbuild
Author: Pedro Sánchez-Sánchez [aut, cre]
    (<https://orcid.org/0000-0002-4846-1813>),
  Alfonso Benítez-Páez [aut] (<https://orcid.org/0000-0001-5707-4340>)
Maintainer: Pedro Sánchez-Sánchez <bio.pedro.technology@gmail.com>
Built: R 4.4.0; ; 2024-05-01 13:50:49 UTC; unix
