site_model_to_xml_prior_distr: Internal function

In ropensci/beautier: 'BEAUti' from R

Internal function

Description

Converts a site model to XML, used in the prior section

Usage

site_model_to_xml_prior_distr(site_model, beauti_options)

Arguments

site_model	a site model, as returned by create_site_model
beauti_options	one BEAUti options object, as returned by create_beauti_options

Value

the site model as XML text

Author(s)

Richèl J.C. Bilderbeek

Examples

site_model_to_xml_prior_distr(
  site_model = create_jc69_site_model(id = 1),
  beauti_options = create_beauti_options()
)
site_model_to_xml_prior_distr(
  site_model = create_hky_site_model(
    id = 1,
    kappa_prior_distr = create_uniform_distr(id = 2)
  ),
  beauti_options = create_beauti_options()
)
site_model_to_xml_prior_distr(
  site_model = create_tn93_site_model(
    id = 1,
    kappa_1_prior_distr = create_uniform_distr(id = 2),
    kappa_2_prior_distr = create_uniform_distr(id = 3)
  ),
  beauti_options = create_beauti_options()
)
site_model_to_xml_prior_distr(
  site_model = create_gtr_site_model(
    id = 1,
    rate_ac_prior_distr = create_uniform_distr(id = 2),
    rate_ag_prior_distr = create_uniform_distr(id = 3),
    rate_at_prior_distr = create_uniform_distr(id = 4),
    rate_cg_prior_distr = create_uniform_distr(id = 5),
    rate_gt_prior_distr = create_uniform_distr(id = 6)
  ),
  beauti_options = create_beauti_options()
)

ropensci/beautier documentation built on July 9, 2024, 6:14 a.m.