PBD: Protracted Birth-Death Model of Diversification

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Conducts maximum likelihood analysis and simulation of the protracted speciation model.

Author
Rampal S. Etienne
Date of publication
2016-03-04 14:53:21
Maintainer
Rampal S. Etienne <r.s.etienne@rug.nl>
License
GPL-2
Version
1.2

View on CRAN

Man pages

pbd_bootstrap
Bootstrap analysis under protracted birth-death model of...
pbd_brts_density
Node depth probbaility density for protracted birth-death...
pbd_durspec_cumdensity
Cumulative density of duration of speciation under protracted...
pbd_durspec_density
Probability density for duration of speciation under...
pbd_durspec_mean
Mean duration of speciation under protracted birth-death...
pbd_durspec_mode
mode of the duration of speciation under protracted...
pbd_durspec_moment
Moments of duration of speciation under protracted...
pbd_durspec_quantile
Quantiles of duration of speciation under protracted...
pbd_durspec_var
Variance in duration of speciation under protracted...
PBD-internal
Internal PBD Functions
pbd_loglik
Loglikelihood for protracted birth-death model of...
pbd_ML
Maximization of loglikelihood under protracted birth-death...
PBD-package
Protracted birth-death model of diversification
pbd_sim
Function to simulate the protracted speciation process
pbd_sim_cpp
Function to simulate the approximate protracted speciation...

Files in this package

PBD
PBD/NAMESPACE
PBD/R
PBD/R/pbd_durspec_var.R
PBD/R/pbd_loglik.R
PBD/R/pbd_ML.R
PBD/R/pbd_sim.R
PBD/R/pbd_durspec_moment.R
PBD/R/pbd_utils.R
PBD/R/pbd_simplex.R
PBD/R/pbd_bootstrap_sim.R
PBD/R/pbd_durspec_mode.R
PBD/R/pbd_durspec_mean.R
PBD/R/pbd_loglik_choosepar.R
PBD/R/pbd_incipient.R
PBD/R/pbd_durspec_cumdensity.R
PBD/R/pbd_bootstrap.R
PBD/R/pbd_durspec_quantile.R
PBD/R/pbd_incipient_rhs.R
PBD/R/pbd_loglik_rhs.R
PBD/R/pbd_brts_density.R
PBD/R/pbd_durspec_density.R
PBD/R/pbd_sim_cpp.R
PBD/MD5
PBD/DESCRIPTION
PBD/man
PBD/man/pbd_durspec_mode.Rd
PBD/man/pbd_ML.Rd
PBD/man/PBD-internal.Rd
PBD/man/pbd_durspec_var.Rd
PBD/man/pbd_durspec_quantile.Rd
PBD/man/pbd_durspec_cumdensity.Rd
PBD/man/pbd_durspec_density.Rd
PBD/man/pbd_sim_cpp.Rd
PBD/man/pbd_brts_density.Rd
PBD/man/pbd_durspec_moment.Rd
PBD/man/pbd_durspec_mean.Rd
PBD/man/pbd_loglik.Rd
PBD/man/pbd_bootstrap.Rd
PBD/man/pbd_sim.Rd
PBD/man/PBD-package.Rd