Package: DAISIE
Type: Package
Title: Dynamical Assembly of Islands by Speciation, Immigration and
        Extinction
Version: 4.6.3
Date: 2026-04-12
Depends: R (>= 4.2.0)
biocViews:
Imports: DDD (>= 5.0), deSolve, doParallel, foreach, graphics,
        magrittr, Matrix, parallel, pracma, Rcpp (>= 1.0.10), stats,
        subplex, tensor, testit, utils
LinkingTo: Rcpp (>= 1.0.10), RcppEigen, BH (>= 1.81.0-1)
Suggests: ape, covr, dplyr, future, future.apply, ggplot2, ggtree (>=
        3.0.0), gridExtra, knitr, phytools, purrr, rmarkdown, testthat
        (>= 2.1.0), tibble, tidytree, tidyr
Enhances: doMC
Authors@R: c(
    person(given = "Rampal S.",
           family = "Etienne",
           email = "r.s.etienne@rug.nl",
           role = c("aut", "cre"),
           comment = c(ORCID = "0000-0003-2142-7612")),
    person(given = "Luis",
           family = "Valente",
           email = "luis.valente@naturalis.nl",
           role = c("aut"),
           comment = c(ORCID = "0000-0003-4247-8785")),
    person(given = "Albert B.",
           family = "Phillimore",
           role = c("aut"),
           comment = c(ORCID = "0000-0002-6553-1553")),
    person(given = "Bart",
           family = "Haegeman",
           role = c("aut"),
           comment = c(ORCID = "0000-0003-2325-4727")),
    person(given = "Joshua W.",
           family = "Lambert",
           role = c("aut"),
           email = "j.w.l.lambert@rug.nl",
           comment = c(ORCID = "0000-0001-5218-3046")),
    person(given = "Pedro",
           family = "Santos Neves",
           role = c("aut"),
           email = "p.m.santos.neves@rug.nl",
           comment = c(ORCID = "0000-0003-2561-4677")),
    person(given = "Shu",
           family = "Xie",
           role = c("aut"),
           email = "s.xie@rug.nl",
           comment = c(ORCID = "0000-0001-9594-946X")),
    person(given = "Richèl J.C.",
           family = "Bilderbeek",
           email = "richel@richelbilderbeek.nl",
           role = c("aut"),
           comment = c(ORCID = "0000-0003-1107-7049")),
    person(given = "Hanno",
           family = "Hildenbrandt",
           email = "h.hildenbrandt@rug.nl",
           role = c("aut"),
           comment = c(ORCID = "0000-0002-6784-1037")),
    person(given = "Torsten",
           family = "Hauffe",
           email = "torsten.hauffe@gmail.com",
           role = c("ctb"),
           comment = c(ORCID = "0000-0001-5711-9457")),
    person(given = "Giovanni",
           family = "Laudanno",
           email = "glaudanno@gmail.com",
           role = c("ctb"),
           comment = c(ORCID = "0000-0002-2952-3345")),
    person(given = "Nadiah",
           family = "Kristensen",
           email = "nadiah@nadiah.org",
           role = c("ctb"),
           comment = c(ORCID = "0000-0002-9720-4581")),
    person(given = "Ornela",
           family = "Dehayem Nanwou",
           email = "o.d.nanwou@rug.nl",
           role = c("ctb"),
           comment = c(ORCID = "0009-0009-0507-1215")),
    person(given = "Thijs",
           family = "Janzen",
           email = "t.janzen@rug.nl",
           role = c("ctb"),
           comment = c(ORCID = "0000-0002-4162-1140")),
    person(given = "Raphael",
           family = "Scherrer",
           email = "r.scherrer@rug.nl",
           role = c("ctb"),
           comment = c(ORCID = "0000-0002-1447-7630")))
License: GPL (>= 3) | file LICENSE
Copyright: See the file COPYRIGHTS for various DAISIE copyright details
Description: Simulates and computes the (maximum) likelihood of a
        dynamical model of island biota assembly through speciation,
        immigration and extinction. See Valente et al. (2015)
        <doi:10.1111/ele.12461>.
NeedsCompilation: yes
SystemRequirements: C++17
Encoding: UTF-8
VignetteBuilder: knitr
URL: https://github.com/rsetienne/DAISIE,
        https://rsetienne.github.io/DAISIE/
BugReports: https://github.com/rsetienne/DAISIE/issues
RoxygenNote: 7.3.3
Config/pak/sysreqs: libglpk-dev libxml2-dev
Repository: https://rsetienne.r-universe.dev
Date/Publication: 2026-04-23 13:52:21 UTC
RemoteUrl: https://github.com/rsetienne/daisie
RemoteRef: HEAD
RemoteSha: ef713fbdeba658e0cc7b670d798f1796a5272747
Packaged: 2026-06-04 11:26:35 UTC; root
Author: Rampal S. Etienne [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-2142-7612>),
  Luis Valente [aut] (ORCID: <https://orcid.org/0000-0003-4247-8785>),
  Albert B. Phillimore [aut] (ORCID:
    <https://orcid.org/0000-0002-6553-1553>),
  Bart Haegeman [aut] (ORCID: <https://orcid.org/0000-0003-2325-4727>),
  Joshua W. Lambert [aut] (ORCID:
    <https://orcid.org/0000-0001-5218-3046>),
  Pedro Santos Neves [aut] (ORCID:
    <https://orcid.org/0000-0003-2561-4677>),
  Shu Xie [aut] (ORCID: <https://orcid.org/0000-0001-9594-946X>),
  Richèl J.C. Bilderbeek [aut] (ORCID:
    <https://orcid.org/0000-0003-1107-7049>),
  Hanno Hildenbrandt [aut] (ORCID:
    <https://orcid.org/0000-0002-6784-1037>),
  Torsten Hauffe [ctb] (ORCID: <https://orcid.org/0000-0001-5711-9457>),
  Giovanni Laudanno [ctb] (ORCID:
    <https://orcid.org/0000-0002-2952-3345>),
  Nadiah Kristensen [ctb] (ORCID:
    <https://orcid.org/0000-0002-9720-4581>),
  Ornela Dehayem Nanwou [ctb] (ORCID:
    <https://orcid.org/0009-0009-0507-1215>),
  Thijs Janzen [ctb] (ORCID: <https://orcid.org/0000-0002-4162-1140>),
  Raphael Scherrer [ctb] (ORCID: <https://orcid.org/0000-0002-1447-7630>)
Maintainer: Rampal S. Etienne <r.s.etienne@rug.nl>