Package: secsse
Type: Package
Title: Several Examined and Concealed States-Dependent Speciation and
        Extinction
Version: 3.7.0
License: GPL (>= 3) | file LICENSE
Authors@R: c(
 person(given = "Leonel",
        family = "Herrera Alsina",
        email = "leonelhalsina@gmail.com",
        role = "aut",
        comment = c(ORCID = "0000-0003-0474-3592")),
 person(given = "Paul",
        family = "van Els",
        email = "paulvanels@gmail.com",
        role = "aut",
        comment = c(ORCID = "0000-0002-9499-8873")),
 person(given = "Thijs",
        family = "Janzen",
        email = "t.janzen@rug.nl",
        role = "ctb",
        comment = c(ORCID = "0000-0002-4162-1140")),
 person(given = "Hanno",
        family = "Hildenbrandt",
        email = "h.hildenbrandt@rug.nl",
        role = "ctb",
        comment = c(ORCID = "0000-0002-6784-1037")),
 person(given = "Pedro",
        family = "Santos Neves",
        email = "p.m.santos.neves@rug.nl",
        role = "ctb",
        comment = c(ORCID = "0000-0003-2561-4677")),
 person(given = "Rampal S.",
        family = "Etienne",
        email = "r.s.etienne@rug.nl",
        role = c("cre","aut"),
        comment = c(ORCID = "0000-0003-2142-7612")))
Description: Simultaneously infers state-dependent diversification
        across two or more states of a single or multiple traits while
        accounting for the role of a possible concealed trait. See
        Herrera-Alsina et al. (2019) <doi:10.1093/sysbio/syy057>.
Depends: R (>= 4.2.0)
Imports: utils, DDD (>= 5.2.4), ape, geiger, Rcpp (>= 1.0.10),
        RcppParallel, ggplot2, tibble, rlang, treestats, pracma
Suggests: diversitree, phytools, testthat, subplex, knitr, rmarkdown
LinkingTo: Rcpp, RcppParallel, BH (>= 1.81.0-1)
NeedsCompilation: yes
SystemRequirements: C++17
Encoding: UTF-8
LazyData: true
URL: https://rsetienne.github.io/secsse/,
        https://github.com/rsetienne/secsse
BugReports: https://github.com/rsetienne/secsse/issues
VignetteBuilder: knitr
RoxygenNote: 7.3.3
Roxygen: list(markdown = TRUE)
Config/pak/sysreqs: cmake libglpk-dev libgmp3-dev make libxml2-dev
Repository: https://rsetienne.r-universe.dev
Date/Publication: 2026-05-15 12:11:50 UTC
RemoteUrl: https://github.com/rsetienne/secsse
RemoteRef: HEAD
RemoteSha: 925a70cf59f6013c697ceca07237175716e20bd8
Packaged: 2026-06-14 07:04:13 UTC; root
Author: Leonel Herrera Alsina [aut] (ORCID:
    <https://orcid.org/0000-0003-0474-3592>),
  Paul van Els [aut] (ORCID: <https://orcid.org/0000-0002-9499-8873>),
  Thijs Janzen [ctb] (ORCID: <https://orcid.org/0000-0002-4162-1140>),
  Hanno Hildenbrandt [ctb] (ORCID:
    <https://orcid.org/0000-0002-6784-1037>),
  Pedro Santos Neves [ctb] (ORCID:
    <https://orcid.org/0000-0003-2561-4677>),
  Rampal S. Etienne [cre, aut] (ORCID:
    <https://orcid.org/0000-0003-2142-7612>)
Maintainer: Rampal S. Etienne <r.s.etienne@rug.nl>