create_alpha_param: Create a parameter called alpha

In beautier: 'BEAUti' from R

Create a parameter called alpha

Description

Create a parameter called alpha

Usage

create_alpha_param(id = NA, value = 0)

Arguments

id	the parameter's ID
value	value of the parameter

Value

a parameter called alpha

Note

this parameter is used in a beta distribution (as returned by create_beta_distr) and gamma distribution (as returned by create_gamma_distr) and inverse-gamma distribution (as returned by create_inv_gamma_distr). It cannot be estimated (as a hyper parameter) yet.

Author(s)

Richèl J.C. Bilderbeek

See Also

the function create_param contains a list of all parameters that can be created

Examples

if (is_on_ci()) {

  # Create the parameter
  alpha_param <- create_alpha_param()

  # Use the parameter in a distribution
  beta_distr <- create_beta_distr(
    alpha = alpha_param
  )

  # Use the distribution to create a BEAST2 input file
  beast2_input_file <- get_beautier_tempfilename()
  create_beast2_input_file(
    input_filename = get_fasta_filename(),
    beast2_input_file,
    tree_prior = create_yule_tree_prior(
      birth_rate_distr = beta_distr
    )
  )
  file.remove(beast2_input_file)

  remove_beautier_folder()
}

beautier documentation built on Nov. 2, 2023, 5:08 p.m.