Package: MorphoRegions
Type: Package
Title: Analysis of Regionalization Patterns in Serially Homologous
        Structures
Version: 0.2.0
Date: 2026-07-17
Authors@R: c(
  person("Amandine", "Gillet", role = c("cre", "aut"),
         email = "gillet.aman@gmail.com", 
         comment = c(ORCID = "0000-0001-9763-6061")),
  person("Katrina", "Jones", role = c("aut"), 
         email = "katrina.jones@bristol.ac.uk",
	       comment = c(ORCID="0000-0003-1088-0497")),
  person("Noah", "Greifer", role = c("aut"), 
         email = "ngreifer@iq.harvard.edu",
	       comment = c(ORCID="0000-0003-3067-7154")),
  person("Stephanie", "Pierce", role = c("aut"),
         email = "spierce@oeb.harvard.edu", 
         comment = c(ORCID = "0000-0003-0717-1841"))
  )
Description: Computes the optimal number of regions (or subdivisions)
        and their position in serial structures without a priori
        assumptions and to visualize the results. After reducing data
        dimensionality with the built-in function for data ordination,
        regions are fitted as segmented linear regressions along the
        serial structure. Every region boundary position and increasing
        number of regions are iteratively fitted and the best model
        (number of regions and boundary positions) is selected with an
        information criterion. This package expands on the previous
        'regions' package (Jones et al. (2018)
        <doi:10.1126/science.aar3126>) with improved computation and
        more fitting and plotting options.
License: GPL (>= 2)
Encoding: UTF-8
Depends: R (>= 4.0.0)
Imports: stats, parallel, utils, grDevices, RColorBrewer (>= 1.1-3),
        cluster (>= 2.1.4), scales (>= 1.3.0), ggplot2 (>= 4.0.0), arg
        (>= 0.1.1), pbapply (>= 1.7-2)
Suggests: viridisLite, patchwork (>= 1.1.0), knitr, rmarkdown
VignetteBuilder: knitr
LazyData: true
Roxygen: list(markdown = TRUE)
URL: https://aagillet.github.io/MorphoRegions/,
        https://github.com/aagillet/MorphoRegions
BugReports: https://github.com/aagillet/MorphoRegions/issues
Config/roxygen2/version: 8.0.0
Repository: https://aagillet.r-universe.dev
Date/Publication: 2026-08-08 13:49:00 UTC
RemoteUrl: https://github.com/aagillet/morphoregions
RemoteRef: HEAD
RemoteSha: 8e7d65f6e45d013530890fb0fd192c2af489f8ec
NeedsCompilation: no
Packaged: 2026-10-11 12:34:44 UTC; root
Author: Amandine Gillet [cre, aut] (ORCID:
    <https://orcid.org/0000-0001-9763-6061>),
  Katrina Jones [aut] (ORCID: <https://orcid.org/0000-0003-1088-0497>),
  Noah Greifer [aut] (ORCID: <https://orcid.org/0000-0003-3067-7154>),
  Stephanie Pierce [aut] (ORCID: <https://orcid.org/0000-0003-0717-1841>)
Maintainer: Amandine Gillet <gillet.aman@gmail.com>