Process the 'BEAST2' output dependent on 'BEAST2' package specifics

Process the 'BEAST2' output dependent on 'BEAST2' package specifics

Usage

parse_beast2_output(out, inference_model)

Arguments

out

a list with the complete babette output, with elements:

• output textual output of a 'BEAST2' run

inference_model

a Bayesian phylogenetic inference model, as returned by create_inference_model

Value

complete babette output with added attributes, which depends on the 'BEAST2' package.

• marg_log_lik the marginal log likelihood estimate

• marg_log_lik_sd the standard deviation around the estimate

• estimates the parameter estimates created during the marginal likelihood estimation

• trees the trees created during the marginal likelihood estimation

Author

Richèl J.C. Bilderbeek