create_rate_at_param: Create a parameter called 'rate AT'

In beautier: 'BEAUti' from R

Create a parameter called 'rate AT'

Description

Create a parameter called 'rate AT'

Usage

create_rate_at_param(id = NA, estimate = TRUE, value = "1.0", lower = "0.0")

Arguments

id	the parameter's ID
estimate	TRUE if this parameter is to be estimated by BEAST2, FALSE otherwise
value	value of the parameter
lower	lowest possible value of the parameter. If the parameter is estimated, lower must be less than value

Value

a parameter called 'rate AT'

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 parameter
  rate_at_param <- create_rate_at_param(value = 1, estimate = FALSE)

  # Use the parameter to create a BEAST2 input file
  beast2_input_file <- get_beautier_tempfilename()
  create_beast2_input_file(
    input_filename = get_fasta_filename(),
    beast2_input_file,
    site_model = create_gtr_site_model(
      rate_at_param = rate_at_param
    )
  )
  file.remove(beast2_input_file)

  remove_beautier_folder()
}

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