ACE_FPK | Ancestral Character Estimation |
BBMV-package | Models for Continuous Traits Evolving in Macroevolutionary... |
charac_time | Characteristic time measurement |
ConvProp_bounds | Convolution of the diffusion matrix with the trait density... |
DiffMat_backwards | Diffusion matrix building |
DiffMat_forward | Diffusion matrix building |
find.mle_FPK | Maximum-likelihood estimation |
find.mle_FPK_multiple_clades_same_V_different_sig2 | Maximum-likelihood estimation |
fit_FPK_multiple_clades_different_V_different_sig2 | Fit independent models in several clades. |
FormatTree_bounds | Tree formatting. |
FPK_sim_traitgram | Simulations with traitgram |
get.landscape.FPK | Plot macroevolutionary landscapes estimated by the FPK or... |
get.landscape.FPK.MCMC | Plot posterior distribution of macroevolutionary landscapes. |
lnL_FPK | Creation of the likelihood function |
lnl_FPK_multiclades_same_V_different_sig2 | Likelihood functions for multiple clades |
LogLik_bounds | Likelihood of the FPK model |
log_prior_5pars_root_bounds | Prior function. |
log_prior_nclades_plus_3_pars | Prior function. |
MH_MCMC_FPK | MCMC estimation |
MH_MCMC_FPK_multiclades | MCMC estimation on multiple clades |
posterior_vs_prior | Posterior vs. prior comparison for the FPK model. |
prep_mat_exp | Matrix exponential. |
proposal_5pars_root_bounds | Parameter update for the MCMC function |
proposal_nclades_plus_3_pars | Parameter update for the multiclade MCMC function |
reformat_multiclade_results | Format the output of a multiclade fit |
Sim_FPK | Simulation of the BBM+V process. |
trans_from_fixed | Linear transformations |
Uncertainty_FPK | Parameter uncertainty |
VectorPos_bounds | Discretization of a continuous trait value into a probability... |
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