Package: ulrb
Type: Package
Title: Unsupervised Learning Based Definition of Microbial Rare
        Biosphere
Version: 0.1.8
Authors@R: c(
    person("Francisco", "Pascoal",,"fpascoal1996@gmail.com", role = c("aut","cre"), comment = c(ORCID = "0000-0003-2315-358X")),
    person("Paula", "Branco",,"paobranco@gmail.com", role = c("aut"), comment = c(ORCID = "0000-0002-9917-3694")),
    person("Luís", "Torgo",,"ltorgo@dal.ca", role = c("aut"), comment = c(ORCID = "0000-0002-6892-8871")),
    person("Rodrigo", "Costa",,"rodrigoscosta@tecnico.ulisboa.pt", role = c("aut"), comment = c(ORCID = "0000-0002-5932-4101")),
    person("Catarina", "Magalhães",,"catarinamagalhaes1972@gmail.com", role = c("aut"), comment = c(ORCID = "0000-0001-9576-2398")))
Maintainer: Francisco Pascoal <fpascoal1996@gmail.com>
Date: 2025-07-07
Description: A tool to define the rare biosphere. 'ulrb' solves the
        problem of the definition of rarity by replacing arbitrary
        thresholds with an unsupervised machine learning algorithm
        (partitioning around medoids, or k-medoids). This algorithm
        works for any type of microbiome data, provided there is an
        abundance table. This method also works for non-microbiome
        data.
License: GPL (>= 3)
Encoding: UTF-8
LazyData: true
Depends: R (>= 2.10)
Suggests: knitr, rmarkdown, stringr, testthat (>= 3.0.0), vegan
Config/testthat/edition: 3
RoxygenNote: 7.3.1
Imports: cluster, dplyr, ggplot2, purrr, rlang, stats, tidyr,
        clusterSim, gridExtra
VignetteBuilder: knitr
Roxygen: list(markdown = TRUE)
URL: https://pascoalf.github.io/ulrb/
BugReports: https://github.com/pascoalf/ulrb/issues
Config/pak/sysreqs: libicu-dev
Repository: https://pascoalf.r-universe.dev
Date/Publication: 2025-07-07 08:03:29 UTC
RemoteUrl: https://github.com/pascoalf/ulrb
RemoteRef: HEAD
RemoteSha: e8271ff0b9dd1240b98268323bca3ab4ccc79d7d
NeedsCompilation: no
Packaged: 2026-07-03 10:00:21 UTC; root
Author: Francisco Pascoal [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-2315-358X>),
  Paula Branco [aut] (ORCID: <https://orcid.org/0000-0002-9917-3694>),
  Luís Torgo [aut] (ORCID: <https://orcid.org/0000-0002-6892-8871>),
  Rodrigo Costa [aut] (ORCID: <https://orcid.org/0000-0002-5932-4101>),
  Catarina Magalhães [aut] (ORCID:
    <https://orcid.org/0000-0001-9576-2398>)