Diversity-Dependent Diversification

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, , Etienne & Haegeman 2012, Am. Nat. 180: E75-E89, and Etienne et al. 2016. Meth. Ecol. Evol. 7: 1092-1099, . Also contains functions to simulate the diversity-dependent process.


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install.packages("DDD")

5.0 by Rampal S. Etienne, 6 months ago


Browse source code at https://github.com/cran/DDD


Authors: Rampal S. Etienne & Bart Haegeman


Documentation:   PDF Manual  


Task views: Phylogenetics, Especially Comparative Methods


GPL-3 license


Imports deSolve, ape, phytools, subplex, Matrix, expm, SparseM, Rcpp

Suggests testthat, testit

Linking to Rcpp, BH


Imported by DAISIE, DAMOCLES, PBD, SADISA, nodeSub, secsse.

Suggested by nLTT.


See at CRAN