dd_loglik1

dd_loglik2

dd_loglik_choosepar

bd_loglik_choosepar

dd_SR_loglik1

dd_SR_loglik2

dd_SR_loglik_choosepar

dd_KI_loglik1

dd_KI_loglik2

dd_KI_loglik_choosepar

dd_MS_loglik1

dd_MS_loglik2

dd_MS_loglik_choosepar

dd_loglik_rhs

dd_loglik_M

dd_loglik_M_bw

dd_loglik_M_aux

dd_loglik_M_bw_aux

dd_loglik_M2

dd_loglik_M2_aux

dd_loglik_M3

dd_loglik_M3_aux

dd_KI_loglikold

dd_loglik_bw_rhs

dd_logliknorm_rhs1

dd_logliknorm_rhs2

dd_logliknorm_rhs3

td_loglik_rhs

td_loglik_bw_rhs

td_loglik_rhs_sim

td_sim

dd_simplex

bd_simplex

dd_SR_simplex

dd_KI_simplex

dd_MS_simplex

brts2phylo

L2phylo

conv

flavec

lambdamu

lambdamu2

lambdamu3

expn_dd_sp

predictsp

expn_dd

sample2

lamu_dd_td

dd_lamuN

dd_MS_lamuN

dd_KI_lamuN

dd_bootstrap_sim

optimizer

simplex

roundn

changepars

internal

DDD-internal


Implements maximum likelihood methods based on the diversity-dependent birth-death process to test whether speciation or extinction are diversity-dependent.
See Etienne et al. 2012, Proc. Roy. Soc. B 279: 1300-1309, <DOI:10.1098/rspb.2011.1439>.
Also implements maximum likelihood methods to detect various types of key innovations in the light of diversity-dependence.
See Etienne & Haegeman 2012, Am. Nat. 180: E75-E89, <DOI:10.1086/667574>.
Finally, DDD contains a function to simulate the diversity-dependent process.

Rampal Etienne

Diversity-Dependent Diversification

DDD-internal function

Internal DDD Functions

DDD-internal: Internal DDD Functions

Description

Arguments

Details