lum_create_cmd: Create the 'beautier' command from the user interface

Description Usage Arguments Author(s)

View source: R/lum_create_cmd.R

Description

Create the beautier command from the user interface

Usage

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lum_create_cmd(
  input_filename = "test.fas",
  output_filename = "beast2.xml",
  gamma_site_model = beautier::create_gamma_site_model(),
  subst_model = "JC69",
  clock_model = "Strict Clock",
  tree_prior = "Yule Model",
  chain_length = 1e+07,
  store_every = -1,
  as_file = FALSE
)

Arguments

input_filename

the name of the FASTA filename

output_filename

the name of the to-be-created BEAST2 file

gamma_site_model

a gamma_site_model, as created by create_gamma_site_model

subst_model

name of the substitution model

clock_model

the clock model, as text

tree_prior

name of the tree prior

chain_length

MCMC chain length

store_every

MCMC store interval

as_file

if TRUE, show create_beast_input_file, else show create_beast_input

Author(s)

Richèl J.C. Bilderbeek


richelbilderbeek/lumier documentation built on March 13, 2021, 10:20 p.m.