Package: ulrb
Type: Package
Title: Unsupervised Learning Based Definition of Microbial Rare
        Biosphere
Version: 0.1.3
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 = "0000-0002-5932-4101")))
Maintainer: Francisco Pascoal <fpascoal1996@gmail.com>
Date: 2023-11-13
Description: A tool to define rare biosphere. 'ulrb' solves the problem of the 
    definition of rarity by replacing human decision 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 score 
    for each phylogenetic unit. For validation of this method to several kinds of 
    molecular data and environments, please see Pascoal et al, 2023 (in preparation).
    Preliminary data suggest this method also works well for non-microbiome data, 
    if there is a species abundance table.
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: 7.2.3
Imports: cluster, dplyr, ggplot2, purrr, rlang, stats, tidyr,
        clusterSim, gridExtra
VignetteBuilder: knitr
URL: https://pascoalf.github.io/ulrb/
BugReports: https://github.com/pascoalf/ulrb/issues
NeedsCompilation: no
Packaged: 2023-11-17 09:30:19 UTC; fpascoal
Author: Francisco Pascoal [aut, cre] (<https://orcid.org/0000-0003-2315-358X>),
  Paula Branco [aut] (<https://orcid.org/0000-0002-9917-3694>),
  Luís Torgo [aut] (<https://orcid.org/0000-0002-6892-8871>),
  Rodrigo Costa [aut] (<https://orcid.org/0000-0002-5932-4101>),
  Catarina Magalhães [aut] (<https://orcid.org/0000-0002-5932-4101>)
Repository: CRAN
Date/Publication: 2023-11-17 19:50:02 UTC
Built: R 4.2.3; ; 2024-04-24 02:42:07 UTC; windows
