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bind_data()
|
Bind data to project |
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change_set()
|
Change active parameter set |
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check_rmaverick_loaded()
|
Check that rmaverick package has loaded successfully |
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delete_set()
|
Delete parameter set |
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get_qmatrix()
|
Extract q-matrix for a given analysis |
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is.mavproject()
|
Determine if object is of class mavproject |
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maverick_file()
|
Import file |
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mavproject()
|
Create a new rmaverick project |
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new_set()
|
Create new parameter set |
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plot_GTI_path()
|
Plot GTI path of current active set |
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plot_acf()
|
Produce MCMC autocorrelation plot |
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plot_alpha()
|
Produce diagnostic plots of parameter alpha |
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plot_density()
|
Produce MCMC density plot |
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plot_logevidence_K()
|
Plot log-evidence estimates over K |
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plot_logevidence_model()
|
Plot log-evidence estimates over parameter sets |
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plot_loglike()
|
Produce diagnostic plots of log-likelihood |
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plot_loglike_quantiles()
|
Plot loglike quantiles of current active set |
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plot_mc_acceptance()
|
Plot Metropolis coupling acceptance rates |
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plot_posterior_K()
|
Plot posterior K |
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plot_posterior_model()
|
Plot posterior model |
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plot_qmatrix()
|
Plot Q-matrix of current active set |
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plot_trace()
|
Produce MCMC trace plot |
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print(<mavproject>)
|
Custom print function for class mavproject |
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print_full()
|
Ordinary print function for class mavproject |
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recalculate_evidence()
|
Recalculate evidence and posterior estimates |
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rmaverick
|
Analysis of genetic population structure via thermodynamic integration. |
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run_mcmc()
|
Run main MCMC |
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sim_data()
|
Simulate data |
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summary(<mavproject>)
|
Print summary for class mavproject |