CRAN/E | DDD

DDD

Diversity-Dependent Diversification

Installation

About

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.

Key Metrics

Version 5.2.2
R ≥ 3.5.0
Published 2023-07-10 380 days ago
Needs compilation? yes
License GPL-3
CRAN checks DDD results

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Maintainer

Maintainer

Rampal S. Etienne

Authors

Rampal S. Etienne

aut / cre

Bart Haegeman

aut

Hanno Hildenbrandt

ctb

Giovanni Laudanno

ctb

Material

Reference manual
Package source

In Views

Phylogenetics

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

r-oldrel

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

DDD archive

Depends

R ≥ 3.5.0

Imports

deSolve
ape
phytools
subplex
DEoptim
Matrix
expm
SparseM
Rcpp ≥ 1.0.10

Suggests

testthat ≥ 3.0.0
testit
igraph

LinkingTo

Rcpp ≥ 1.0.10
RcppEigen
BH ≥ 1.81.0-1

Reverse Imports

DAISIE
DAMOCLES
nodeSub
PBD
pirouette
SADISA
secsse

Reverse Suggests

nLTT