create_rate_ag_param {beautier}R Documentation

Create a parameter called 'rate AG'

Description

Create a parameter called 'rate AG'

Usage

create_rate_ag_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 AG'

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_ag_param <- create_rate_ag_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_ag_param = rate_ag_param
    )
  )
  file.remove(beast2_input_file)

  remove_beautier_folder()
}

[Package beautier version 2.6.11 Index]