Table 1:

Module options currently implemented in the seamless design trial simulator. The option names are in bold, and the names immediately below each option, which follow the ‘$’ symbol, give the inputs required for that option.

Stage 1		Stage 2
Module 1	Module 2	Module 3	Module 4
crm	bayes	crm	bayes
$n	$prob_threshold	$n	$prob_threshold
$skeleton	$prob_means	$skeleton†	$prob_means
$starting_dose	$prior_n_per	$beta_scale†	$prior_n_per
$beta_scale		$dose_cohort_size	$include_stage1_data
$dose_cohort_size		$dose_cohort_size_first_only
$dose_cohort_size_first_only		$earliest_stop
$earliest_stop
3pl3	bayes_isoreg	3pl3	bayes_isoreg
$starting_dose	$prob_threshold		$prob_threshold
	$alpha_scale		$alpha_scale
			$include_stage1_data
empiric	inverted_score	empiric	inverted_score
$n	$ci_level_onesided	$n	$ci_level_onesided
$starting_dose		$rule	$include_stage1_data
$rule		$first_patient_look
$first_patient_look		$thresh_decrease
$thresh_decrease
fixed	min_num_resp	fixed	min_num_resp
$n	$number	$n	$number
$starting_dose		$include_stage1_data
	min_pct_resp	continume_crm‡	min_pct_resp
	$percent	$n	$percent
			$include_stage1_data
	none	none	none

^†these arguments are optional if module 1 is crm. If this is the case and these arguments are not provided, the module 1 options will be used.

^‡this option can only be selected if module 1 is crm because this indicates a simple continuation of that crm