DESCRIPTION

Package: DDD
Type: Package
Title: Diversity-Dependent Diversification
Version: 5.2.3
Date: 2024-11-26
Depends: R (>= 3.5.0)
Imports:
  deSolve,
  ape,
  phytools,
  subplex,
  DEoptim,
  Matrix,
  expm,
  SparseM,
  Rcpp (>= 1.0.10)
LinkingTo: 
  Rcpp (>= 1.0.10),
  RcppEigen,
  BH (>= 1.81.0-1)
Suggests:
    testthat (>= 3.0.0),
    testit,
    igraph
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 = "Bart",
           family = "Haegeman",
           email = "bart.haegeman@sete.cnrs.fr",
           role = c("aut"),
           comment = c(ORCID = "0000-0003-2325-4727")),
    person(given = "Hanno",
           family = "Hildenbrandt",
           email = "h.hildenbrandt@rug.nl",
           role = c("ctb"),
           comment = c(ORCID = "0000-0002-6784-1037")),
    person(given = "Giovanni",
           family = "Laudanno",
           email = "glaudanno@gmail.com",
           role = c("ctb"),
           comment = c(ORCID = "0000-0002-2952-3345"))
           )
License: GPL-3
Encoding: UTF-8
Description:
 Implements maximum likelihood and bootstrap methods based on
 the diversity-dependent birth-death process to test whether
 speciation or extinction are diversity-dependent, under various
 models including various types of key innovations.
 See Etienne et al. 2012, Proc. Roy. Soc. B 279: 1300-1309,
 <DOI:10.1098/rspb.2011.1439>,
 Etienne & Haegeman 2012, Am. Nat. 180: E75-E89,
 <DOI:10.1086/667574>,
 Etienne et al. 2016. Meth. Ecol. Evol. 7: 1092-1099,
 <DOI:10.1111/2041-210X.12565> and
 Laudanno et al. 2021. Syst. Biol. 70: 389–407,
 <DOI:10.1093/sysbio/syaa048>.
 Also contains functions to simulate the diversity-dependent
 process.
RoxygenNote: 7.3.2
Config/testthat/edition: 3
URL: https://rsetienne.github.io/DDD/