Man pages for BEDASSLE
Quantifies Effects of Geo/Eco Distance on Genetic Differentiation
| BEDASSLE-internal | Internal BEDASSLE Functions |
| BEDASSLE-package | Disentangling the contributions of geographic and ecological... |
| calculate.all.pairwise.Fst | Calculates unbiased pairwise Fst between all sampled... |
| calculate.pairwise.Fst | Calculates unbiased pairwise Fst between a pair of... |
| Covariance | The parametric covariance matrix |
| HGDP.bedassle.data | The Eurasian subset of the HGDP dataset used in example... |
| link.up.posteriors | Links up multiple MCMC output objects |
| make.continuing.params | Generates an R object containing the last parameter values of... |
| MCMC | Runs the Markov chain Monte Carlo with the standard... |
| MCMC_BB | Runs the Markov chain Monte Carlo with the overdispersion... |
| mcmc.operators | Operator parameters that control the operation of the MCMC |
| plot_acceptance_rate | Plots the acceptance rate of a parameter across MCMC... |
| plot_all_acceptance_rates | Plots the acceptance rates of all parameters across MCMC... |
| plot_all_joint_marginals | Plots the joint marginals for all parameter pairs |
| plot_all_marginals | Plots the marginal densities for all parameters |
| plot_all_phi_marginals | Plot all the marginals for the phi parameters for all... |
| plot_all_phi_trace | Plots all the trace plots for the phi parameters for all... |
| plot_all_trace | Plots all the trace plots for all parameters |
| plot_joint_marginal | Plots the joint marginal for a pair of parameters |
| plot_marginal | Plots the marginal density of a parameter |
| plot_phi_marginal | Plots the marginal for the phi parameter estimated in a... |
| plot_phi_trace | Plots the trace plot for the phi parameter estimated in a... |
| plot_posterior_predictive_samples | Plots posterior predictive sampling |
| plot_trace | Plot the trace plot for a parameter |
| posterior.predictive.sample | Generates posterior predictive samples |
