plot.check_model_bh_intra_location: Get ggplot to visualize output from...
In priviere/PPBstats: An R package to perform analysis found within PPB programmes

Description Usage Arguments Details Value Author(s) See Also

View source: R/plot.check_model_bh_intra_location.R

plot.check_model_bh_GxE returns ggplot to visualize outputs from check_model.fit_model_bh_intra_location

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## S3 method for class 'check_model_bh_intra_location'
plot(x,
  nb_parameters_per_plot = 8, ...)

`x`	Output from `check_model.fit_model_bh_intra_location`
`nb_parameters_per_plot`	number of parameter per plot to display
`...`	further arguments passed to or from other methods

S3 method.

See example in the book: https://priviere.github.io/PPBstats_book/family-2.html#model-1

For mcmc_not_converge_traceplot_density : If you wish exhaustive information, look at ggmcmc::ggmcmc with ggmcmc(out_model$MCMC). But be careful with the size of your MCMC output which are often too big to be performed in R.

sigma_j_gamma : mean of each sigma_j displayed on the inverse Gamma distribution. The first graph represent all the sigma_j, the other graph represent nb_parameters_per_plot sigma_j per graph.
mu_ij : distribution of each mu_ij in a list with as many elements as environment. For each element of the list, there are as many graph as needed with nb_parameters_per_plot mu_ij per graph.
beta_jk : distribution of each beta_jk in a list with as many elements as environment. For each element of the list, there are as many graph as needed with nb_parameters_per_plot beta_jk per graph.
sigma_j : distribution of each sigma_j. There are as many graph as needed with nb_parameters_per_plot sigma_j per graph.
epsilon_ijk : standardised residuals distribution. If the model went well it should be between -2 and 2.
mcmc_not_converge_traceplot_density : a list with the plots of trace and density to check the convergence of the two MCMC only for chains that are not converging thanks to the Gelman-Rubin test. If all the chains converge, it is NULL.